Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr03

Orthogroup ID

OG0003176

Physical Location & Seq

Genomic Coordinates Forward (+)

9188111 .. 9204051

Gene Structure 15941 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD03G1106800.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 4194 bp

ATGTCCGACAAGGAGATCAGGAAAATGGCTGAAGTTCAAATCTTTAAAGGTCAATATTATGATTCCAATCGGAAGCCTATTGAAGGCGGCTTATTGGACCCCCGCTTGGGTCCTGCAAATAGGAGTAGTGGTGCATGTGCTACCTGTGGTGGGACAACGAAGGACTGCCCGGGGCACTTTGGATACTTGGTGCTTGCCCTTCCTGTTTTCAATGTTGGGTATTTAAGTACTATTGTGGACATATTGAAGTGCATTTGTAAGTTATGTTCTGGCATACTTTTGGAGGAGGGAATGCGCATCGAATTTTTGAAGAAAATGAGACGTCCCAAAATGGAGCCCATGAAGAAAAGTGAGTTGATGAAAGTGATAGTGAAGAAGTGTAATAGCTTGACAACCAATAATAGACCAGTGAAGTGCTCCAAATGTGGATTTATAAATGGTTCAGTGAAGAAGGCTGTGGGTGTGCTGGGCATTATCCATGATCGTTCAAAATTTATTGGTGTTATGGATGATTTTAGATCAGCAATATCTCACACGAAAGAGTCCAAAGCGTCCTTTAATCCGGCTACTCATAATCTAAACCCTGCTAGAGTTTTTTCGCTGTTCAAAAGGATGGTTGATGAGGATTGTGAGTTGCTTTATCTTTCAGATAGACCAGAGAACCTCATAATGACAAACATTGCCGTGCCGCCGATACCTATTCGTCCTTCTGTTATTGTGGATGGATCACAGAGTAATGAAAATGACATTACAGAGAGGTTGAAGAGAATTATTCAATCAAATTCTAGTCTCCGACAGGATTTAATAGAAGCAAGTTCTGCAGCCAAATGTTTGGCGAGTTGGGAGATACTTCAAGTTGAGGTTGCACAGTACATAAACAGTGATGTTCGTGGTGTTCCCTTTTCCATGCAAACTTCCAAGCCATTGGCTGGTTTTGTGCAGCGCCTGAAAGGGAAAGGAGGGCGCTTTCGTGGGAATTTATCTGGGAAGCGTGTAGAATATACTGGTCGAACTGTTATATCACCAGACCCTAATCTGAAAATTACCGAGGTTGGAATCCCTATCAAAATGGCTACAATATTAACTTATCCAGAACGTGTTTCCCATCATAATATTGAGAAGTTGAGGCAGTGTGTCAGTAATGGACCTGATAAGTACCCTGGTGCCAGAGTGCTTAGAAATTCCGATGGGACTGAATGGGTTTTAAAGGTTAACAGAAAGAGCATTGCTGATTCACTAAAATATGGTGACATAGTTGAACGCCACCTAGAAGACGGGGACGTTGTTCTTTTCAACAGACAACCAAGCTTGCATCGGATGTCTCTCATGTGTCATAGGGCTAAGATTATGCCTTGGAGAACATTGAGGTTTAATGAATCTGTTTGCAACCCATACAATGCTGATTTTGATGGTGATGAAATGAATATGCATGTCCCGCAAACAGAAGAGGCCCGGACAGAAGCTCTTACGTTGATGGGGGTGCAAAACAATCTATGTACTCCAAAAAATGGAGAGGTTTTGGTTGCTTCCACCCAAGATTTTCTAACGTCCTCTTTCCTTATTACAAGGAAGGACACATTTTATGACCGTGCATCTTTTTCTCTCATGTGTTCATATATGGGGGATGGAGCGGATACTATTGACTTGCCAACACCTTCTGTAATTAAGCCAATAGAGCTATGGACAGGAAAACAATTATTTAGTGTTCTAGTACGCCCAAATTCAAATGTGAGAGTCTATTTGAATCTTACAGTTACAGAGAAATCCTACACCAAGACTGGAGATGGAAGAGAAATTGAAGCAATGTGCCCAAACGACGGATTTGTTTATTTTCGTAACAGTGAGCTCATAGCTGGGCAACTTGGGAAGGGTACTTTGGGGAACGGCAATAAGGATGGACTTTACTCTGTTCTATTGAGAGACTATAAAGCTCATGCTGCTGCTTCTTGCATGAATCGCCTGGCAAAGTTAAGTGCCCGATGGATTGGTAATCATGGATTCTCAATTGGGATTAGCGATGTACAACCAAGTGACAGTTTGTACGATGAGAAAGAAAAATTAATTAAAGAAGGTTATGACAAATGCGGCGGCCAGATAAAGTTGTATAATGAAGGACAGCTACCACTTGTACCTGGTTTTGATGCCGCACAATCACTTGAGACTGGGATAACTAGTTTACTAAACAATATTAGAGATCAAACTGGAAAGTTGTGCATGCAAAAGCTCCATTGGAGAAATAGTCCCTTGATCATGTCCCAGTGTGGTTCTAAAGGATCTCCTATCAATATCAGCCAGATGGTTGCCTGTGTTGGCCAGCAATCAGTTGGGGGTCGTCGTGCACCTAATGGATTCATAGATCGAAGCCTTCCTCACTTCCCTAGATTTGCAAAGATGCCTGCTGACCAAGGTGTTGCTGTTGTTCTTTTAGAAGCAAAGGGCTTTGTTGCTAGTTCCTTTTACAGTGGCTTGACAGCTACTGAGTTCTTTTTCCATACAATGGGCGGGCGAGAAGGGCTTGTGGATACAGCCGTGAAAACAGCTGATACTGGATACATGTCTCGTAGATTGTCAAAAATTTTGGAGGACCTATCTGTCCAGTACGATAACACAGTAAGGAATTCAAGTGGATCTATAGTTCAATTTTGTTATGGGGATGACGGTATGGATCCTGCAATGATGGAAGGAAAAGAAAGTGGAGCTCCTTTGGACTTCAACCGATTGTTTTTGAAAGCCAAGGCCACATGTCCTGCTGGAGGAAGTGATACCTTGTCTTCTGAAGAAGTGTCTGAAATAGTGAGTAGCAGGCTTTCAAAACACGATATGACTCCTGATGGCGGTTGTGCTGCTGGTTTCAAAACTTCTTTGGAGAAATTCCTGGATAAATTTGTAAAAACATTTAGAGAAACACATGAGACTTTTGTGCTGGATCAAAATCCTGCATGGAAGGAAAAGTCTGCTACTCTGGATAAGATTGTCCAAAATATATCTGGTGTTACTTCTCAACAGCTGAAGGTCTTCCTCGATACTTGCATTTCTCGTTATCATTCAAAAAAGGTCGAAGCTGGGACAGCAATTGGAGTAATTGGAGCTCAAAGTATTGGCGAACCTGGGACGCAGATGACATTAAAAACTTTTCACTTTGCCGGAGTTGCAAGCATGAACGTTACCCTTGGGGTCCCTCGTATCAAGGAAATAATAAATGGAGCAAAAAAGATCAGTACACCCATCATCACTGCAGTACTTGAGTGGGATACTAATGCGAAATTCGCACGGCTGGTAGCAGGCCGGATTGAGAAAACAAATCTAGGGCAGGTTGCTAAGAGTATAAAAACTGTAATGACTTCAAGAGCGGCATCTATAGTCATCACACTTGATATGGTCATGATTCAAGATGCACACTTGTCTATAGATGCTAATGTTGTAAAAGAATCAATTTTACGAACACCGAGAATCAAACTGAAGAGCGAGCATATTAGGGTTTTGGATATCAGAAAGTTAGAAATTCTTCCTCAGGAGGCTGATAGGAGTAGGCTCTATTTTCACCTCGACTATCTAAAGAGTATGCTCCCAAAAGTTATTGTACGGGGTGTAGGCACAGTTCAGCGTGTTGTTATTAATGAAGAAAAGGAGAAAAAAGAGAAAAATGATATTGAAGTTAAAGGAGACGAAAAGAAGTACAAGTTGTTTGCAGAAGGCACTGGTCTTCTAGCGGTAATGGGCACTGAAGGAATTGATGGTTGTAAAACGACAAGTAATGATGTTATGGAAGTGCAGCGGACACTTGGAATTGAAGCTGCTAGAGTCTGTATCATTGAGGAGATAAAGAAAGTAATGAAATCGCACGGGATGAACATAGACGATCGCCATATGATTTTTCTAGCGGATGTTATGACATACAGGGGTGAAGTTCTTGGAATCACAAGATTTGGCGTTTCAAAAATGGACAAGAGTGTTTTAATGCTTGCTTCATTTGAGCGGACAGACGATATCCTATTTAATGCTAGTGTAAACGGGAGAGTTGACAAGATTGAAGGCGTAAGTGAAAGCATCATCATGGGTATCCCAATGCAGATAGGCACTGGAATGTTCAAAGTTAGGCAAAGTGTTTCTTCTTGTCTGGAGCAACCCACAGATTTGGGACTATCACGTTCAGATGTGCAGCTGGATTATGGGCCACAATCGATTCTTACCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0001817 GO:0001819 GO:0002376 GO:0003674 GO:0003824 GO:0003899 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005666 GO:0005737 GO:0005829 GO:0006139 GO:0006351 GO:0006725 GO:0006807 GO:0006950 GO:0006952 GO:0006955 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 GO:0032479 GO:0032481 GO:0032648 GO:0032728 GO:0032774 GO:0032991 GO:0034062 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0045087 GO:0046483 GO:0048518 GO:0050789 GO:0050896 GO:0051239 GO:0051240 GO:0055029 GO:0061695 GO:0065007 GO:0070013 GO:0071704 GO:0090304 GO:0097659 GO:0097747 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko04623 ko05169 map00230 map00240 map01100 map03020 map04623 map05169

Pfam Domains

Protein Families

RNA_pol_Rpb1_1 RNA_pol_Rpb1_2 RNA_pol_Rpb1_3 RNA_pol_Rpb1_4 RNA_pol_Rpb1_5

Protein Analysis

1398

Amino Acids

154.44

Weight (kDa)

8.91

Isoelectric Point (pI)

37.44

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb1_1	PF04997	1 - 327	1.6e-75	RNA polymerase Rpb1, domain 1
RNA_pol_Rpb1_2	PF00623	329 - 494	1.3e-75	RNA polymerase Rpb1, domain 2
RNA_pol_Rpb1_3	PF04983	497 - 674	1.2e-37	RNA polymerase Rpb1, domain 3
RNA_pol_Rpb1_4	PF05000	702 - 803	4.2e-26	RNA polymerase Rpb1, domain 4
RNA_pol_Rpb1_5	PF04998	822 - 1318	8e-90	RNA polymerase Rpb1, domain 5

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

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Orthologous Genes (Group: OG0003176)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G60040 AT5G60040
fragaria_vesca	FvH4_3g34290 FvH4_3g34290 FvH4_3g34290 FvH4_6g15631
malus_domestica	MD03G1106800.v1.1 MD09G1157000.v1.1
prunus_persica	Prupe.6G089600_v2.0.a1 Prupe.6G089600_v2.0.a1
pyrus_communis	pycom03g08620 pycom09g07570
rosa_chinensis	RchiOBHm_Chr3g0469301 RchiOBHm_Chr3g0469321 RchiOBHm_Chr5g0061861
rosa_laevigata	RLG00000024360 RLG00000035511
rosa_multiflora	Rmu_sc0004134.1_g000001 Rmu_sc0011641.1_g000013 Rmu_sc0011641.1_g000015 Rmu_sc0019271.1_g000001 Rmu_sc0022191.1_g000001
rosa_roxburghii	Rroxscaffold_1G00018870 Rroxscaffold_6G00411990 Rroxscaffold_6G00412000
rosa_rugosa	Rorug03G0100400 Rorug05G0344900 Rorug05G0345000
rosa_samantha	Rh3AG149800 Rh3BG173400 Rh3CG164500 Rh3DG202000 Rh5AG405500 Rh5BG418300 Rh5CG442800 Rh5DG432400
rosa_wichuraiana	Rw5G038070

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	434
AasI	GACNNNNNNGTC	1 cut(s)	2591
AatII	GACGTC	1 cut(s)	325
Acc16I	TGCGCA	1 cut(s)	296
Acc36I	ACCTGC	1 cut(s)	3301
AccB1I	GGYRCC	1 cut(s)	1163
AccB7I	CCANNNNNTGG	3 cut(s)	929, 1508, 2497
AccBSI	CCGCTC	3 cut(s)	1631, 3350, 3976
AclI	AACGTT	1 cut(s)	3162
AclWI	GGATC	6 cut(s)	733, 2281, 2635, 2660, 2673, 2934
AcoI	YGGCCR	2 cut(s)	2089, 2311
AcuI	CTGAAG	5 cut(s)	51, 2796, 3029, 3479, 3744
AcyI	GRCGYC	1 cut(s)	322
AflIII	ACRYGT	3 cut(s)	1096, 2553, 2741
AhlI	ACTAGT	1 cut(s)	2171
AjnI	CCWGG	5 cut(s)	1159, 1959, 2131, 2874, 3106
AjuI	GAANNNNNNNTTGG	2 cut(s)	1859, 1891
AloI	GAACNNNNNNTCC	2 cut(s)	2619, 2651
Alw21I	GWGCWC	5 cut(s)	419, 1848, 2341, 2701, 3091
Alw26I	GTCTC	8 cut(s)	313, 794, 1326, 1914, 2153, 2562, 2906, 3657
Alw44I	GTGCAC	1 cut(s)	2337
AlwI	GGATC	6 cut(s)	733, 2281, 2635, 2660, 2673, 2934
AlwNI	CAGNNNCTG	2 cut(s)	946, 2477
Ama87I	CYCGRG	1 cut(s)	169
AoxI	GGCC	6 cut(s)	1449, 2089, 2311, 2736, 3283, 4172
ApaLI	GTGCAC	1 cut(s)	2337
ApeKI	GCWGC	8 cut(s)	821, 940, 1937, 1940, 2843, 3772, 3794, 4159
AseI	ATTAAT	2 cut(s)	2060, 3615
Asp700I	GAANNNNTTC	2 cut(s)	3014, 3504
AspLEI	GCGC	3 cut(s)	297, 945, 966
AspS9I	GGNCC	7 cut(s)	97, 110, 1145, 1450, 2584, 3175, 4172
AsuC2I	CCSGG	3 cut(s)	170, 171, 1453
AsuHPI	GGTGA	5 cut(s)	1014, 1259, 1424, 3533, 3914
AvaI	CYCGRG	1 cut(s)	169
AvaII	GGWCC	5 cut(s)	97, 110, 1145, 2584, 3175
AxyI	CCTNAGG	1 cut(s)	3510
BaeGI	GKGCMC	5 cut(s)	177, 1811, 1978, 2341, 3722
BaeI	ACNNNNGTAYC	2 cut(s)	2514, 2547
BalI	TGGCCA	1 cut(s)	2313
BamHI	GGATCC	1 cut(s)	2665
BanI	GGYRCC	1 cut(s)	1163
BanII	GRGCYC	4 cut(s)	339, 1848, 2701, 3091
BarI	GAAGNNNNNNTAC	2 cut(s)	2103, 2135
BbsI	GAAGAC	4 cut(s)	1278, 2763, 3007, 3695
Bbv12I	GWGCWC	5 cut(s)	419, 1848, 2341, 2701, 3091
BbvI	GCAGC	8 cut(s)	833, 952, 1924, 1927, 2830, 3781, 3784, 4171
BceAI	ACGGC	4 cut(s)	668, 1900, 2513, 3287
BciT130I	CCWGG	5 cut(s)	1161, 1961, 2133, 2876, 3108
BciVI	GTATCC	6 cut(s)	176, 1627, 2515, 2543, 3244, 4070
BclI	TGATCA	1 cut(s)	2247
BcnI	CCSGG	3 cut(s)	170, 171, 1453
BcoDI	GTCTC	8 cut(s)	313, 794, 1326, 1914, 2153, 2562, 2906, 3657
BcuI	ACTAGT	1 cut(s)	2171
BfmI	CTRYAG	5 cut(s)	819, 2631, 3234, 3357, 3405
BfoI	RGCGCY	2 cut(s)	946, 967
BfuAI	ACCTGC	1 cut(s)	3301
BfuI	GTATCC	6 cut(s)	176, 1627, 2515, 2543, 3244, 4070
BmcAI	AGTACT	2 cut(s)	229, 3240
Bme1390I	CCNGG	8 cut(s)	170, 171, 1161, 1453, 1961, 2133, 2876, 3108
Bme18I	GGWCC	5 cut(s)	97, 110, 1145, 2584, 3175
BmeT110I	CYCGRG	1 cut(s)	169
BmgT120I	GGNCC	7 cut(s)	97, 110, 1145, 1450, 2584, 3175, 4172
BmiI	GGNNCC	7 cut(s)	99, 111, 336, 1165, 2667, 3176, 3177
BmrFI	CCNGG	8 cut(s)	170, 171, 1161, 1453, 1961, 2133, 2876, 3108
BmrI	ACTGGG	2 cut(s)	2172, 2251
BmsI	GCATC	9 cut(s)	306, 1321, 1601, 2131, 2382, 3362, 3382, 3400, 4056
BmuI	ACTGGG	2 cut(s)	2172, 2251
BpiI	GAAGAC	4 cut(s)	1278, 2763, 3007, 3695
BpmI	CTGGAG	3 cut(s)	1800, 2772, 4139
BpuEI	CTTGAG	2 cut(s)	2177, 3263
BpuMI	CCSGG	3 cut(s)	170, 171, 1453
Bsa29I	ATCGAT	1 cut(s)	4181
BsaBI	GATNNNNATC	2 cut(s)	66, 2931
BsaHI	GRCGYC	1 cut(s)	322
BsaJI	CCNNGG	9 cut(s)	169, 170, 1047, 1159, 1352, 2404, 2733, 3107, 3169
BsaXI	ACNNNNNCTCC	4 cut(s)	115, 145, 2224, 2254
Bse21I	CCTNAGG	1 cut(s)	3510
Bse3DI	GCAATG	4 cut(s)	678, 1224, 1809, 2679
Bse8I	GATNNNNATC	2 cut(s)	66, 2931
BseBI	CCWGG	5 cut(s)	1161, 1961, 2133, 2876, 3108
BseCI	ATCGAT	1 cut(s)	4181
BseDI	CCNNGG	9 cut(s)	169, 170, 1047, 1159, 1352, 2404, 2733, 3107, 3169
BseGI	GGATG	9 cut(s)	514, 618, 727, 1323, 1630, 1900, 2659, 3852, 3889
BseJI	GATNNNNATC	2 cut(s)	66, 2931
BseMI	GCAATG	4 cut(s)	678, 1224, 1809, 2679
BseMII	CTCAG	2 cut(s)	2469, 3524
BseRI	GAGGAG	2 cut(s)	299, 3830
BseSI	GKGCMC	5 cut(s)	177, 1811, 1978, 2341, 3722
BseXI	GCAGC	8 cut(s)	833, 952, 1924, 1927, 2830, 3781, 3784, 4171
BseYI	CCCAGC	3 cut(s)	466, 1853, 3062
BsgI	GTGCAG	3 cut(s)	959, 3791, 4178
Bsh1285I	CGRYCG	1 cut(s)	3862
BshFI	GGCC	6 cut(s)	1451, 2091, 2313, 2738, 3285, 4174
BshNI	GGYRCC	1 cut(s)	1163
BshVI	ATCGAT	1 cut(s)	4181
BsiEI	CGRYCG	1 cut(s)	3862
BsiHKAI	GWGCWC	5 cut(s)	419, 1848, 2341, 2701, 3091
BsiHKCI	CYCGRG	1 cut(s)	169
BsiSI	CCGG	5 cut(s)	170, 563, 1453, 3144, 3286
BsmAI	GTCTC	8 cut(s)	313, 794, 1326, 1914, 2153, 2562, 2906, 3657
BsmBI	CGTCTC	2 cut(s)	313, 3657
BsmI	GAATGC	1 cut(s)	297
BsnI	GGCC	6 cut(s)	1451, 2091, 2313, 2738, 3285, 4174
BsoBI	CYCGRG	1 cut(s)	169
Bsp1407I	TGTACA	1 cut(s)	2020
BspANI	GGCC	6 cut(s)	1451, 2091, 2313, 2738, 3285, 4174
BspCNI	CTCAG	2 cut(s)	2470, 3523
BspDI	ATCGAT	1 cut(s)	4181
BspHI	TCATGA	1 cut(s)	3381
BspLI	GGNNCC	7 cut(s)	99, 111, 336, 1165, 2667, 3176, 3177
BspMAI	CTGCAG	2 cut(s)	823, 3238
BspMI	ACCTGC	1 cut(s)	3301
BspPI	GGATC	6 cut(s)	733, 2281, 2635, 2660, 2673, 2934
BspQI	GCTCTTC	1 cut(s)	3455
BspT107I	GGYRCC	1 cut(s)	1163
BsrBI	CCGCTC	3 cut(s)	1631, 3350, 3976
BsrDI	GCAATG	4 cut(s)	678, 1224, 1809, 2679
BsrGI	TGTACA	1 cut(s)	2020
BssECI	CCNNGG	9 cut(s)	169, 170, 1047, 1159, 1352, 2404, 2733, 3107, 3169
BssNI	GRCGYC	1 cut(s)	322
BssT1I	CCWWGG	4 cut(s)	1352, 2404, 2733, 3169
Bst2UI	CCWGG	5 cut(s)	1161, 1961, 2133, 2876, 3108
Bst6I	CTCTTC	4 cut(s)	758, 1440, 1783, 3455
BstACI	GRCGYC	1 cut(s)	322
BstAPI	GCANNNNNTGC	1 cut(s)	818
BstAUI	TGTACA	1 cut(s)	2020
BstDEI	CTNAG	5 cut(s)	1175, 1341, 2478, 3318, 3510
BstENI	CCTNNNNNAGG	2 cut(s)	81, 2751
BstF5I	GGATG	9 cut(s)	514, 618, 727, 1323, 1630, 1900, 2659, 3852, 3889
BstH2I	RGCGCY	2 cut(s)	946, 967
BstHHI	GCGC	3 cut(s)	297, 945, 966
BstMAI	GTCTC	8 cut(s)	313, 794, 1326, 1914, 2153, 2562, 2906, 3657
BstMCI	CGRYCG	1 cut(s)	3862
BstMWI	GCNNNNNNNGC	9 cut(s)	818, 1435, 1675, 1937, 1956, 2512, 3068, 3149, 3266
BstNI	CCWGG	5 cut(s)	1161, 1961, 2133, 2876, 3108
BstNSI	RCATGY	5 cut(s)	138, 1433, 2218, 2557, 2745
BstSCI	CCNGG	8 cut(s)	168, 169, 1159, 1451, 1959, 2131, 2874, 3106
BstSFI	CTRYAG	5 cut(s)	819, 2631, 3234, 3357, 3405
BstSLI	GKGCMC	5 cut(s)	177, 1811, 1978, 2341, 3722
BstV1I	GCAGC	8 cut(s)	833, 952, 1924, 1927, 2830, 3781, 3784, 4171
BstV2I	GAAGAC	4 cut(s)	1278, 2763, 3007, 3695
BstX2I	RGATCY	3 cut(s)	2273, 2627, 2665
BstXI	CCANNNNNNTGG	3 cut(s)	832, 925, 4135
BstYI	RGATCY	3 cut(s)	2273, 2627, 2665
Bsu15I	ATCGAT	1 cut(s)	4181
Bsu36I	CCTNAGG	1 cut(s)	3510
BsuI	GTATCC	6 cut(s)	176, 1627, 2515, 2543, 3244, 4070
BsuRI	GGCC	6 cut(s)	1451, 2091, 2313, 2738, 3285, 4174
BsuTUI	ATCGAT	1 cut(s)	4181
BtgZI	GCGATG	1 cut(s)	2031
BtsCI	GGATG	9 cut(s)	514, 618, 727, 1323, 1630, 1900, 2659, 3852, 3889
BtsI	GCAGTG	2 cut(s)	1136, 3231
BveI	ACCTGC	1 cut(s)	3301
CaiI	CAGNNNCTG	2 cut(s)	946, 2477
CciI	TCATGA	1 cut(s)	3381
CfoI	GCGC	3 cut(s)	297, 945, 966
Cfr13I	GGNCC	7 cut(s)	97, 110, 1145, 1450, 2584, 3175, 4172
Cfr9I	CCCGGG	1 cut(s)	169
ClaI	ATCGAT	1 cut(s)	4181
CseI	GACGC	2 cut(s)	540, 3121
CsiI	ACCWGGT	1 cut(s)	2131
DdeI	CTNAG	5 cut(s)	1175, 1341, 2478, 3318, 3510
DraI	TTTAAA	2 cut(s)	46, 1206
DrdI	GACNNNNNNGTC	1 cut(s)	2591
DseDI	GACNNNNNNGTC	1 cut(s)	2591
EaeI	YGGCCR	2 cut(s)	2089, 2311
Eam1104I	CTCTTC	4 cut(s)	758, 1440, 1783, 3455
EarI	CTCTTC	4 cut(s)	758, 1440, 1783, 3455
Ecl136II	GAGCTC	3 cut(s)	1846, 2699, 3089
Eco130I	CCWWGG	4 cut(s)	1352, 2404, 2733, 3169
Eco24I	GRGCYC	4 cut(s)	339, 1848, 2701, 3091
Eco32I	GATATC	2 cut(s)	3487, 3988
Eco47I	GGWCC	5 cut(s)	97, 110, 1145, 2584, 3175
Eco53kI	GAGCTC	3 cut(s)	1846, 2699, 3089
Eco57I	CTGAAG	5 cut(s)	51, 2796, 3029, 3479, 3744
Eco81I	CCTNAGG	1 cut(s)	3510
Eco88I	CYCGRG	1 cut(s)	169
EcoICRI	GAGCTC	3 cut(s)	1846, 2699, 3089
EcoNI	CCTNNNNNAGG	2 cut(s)	81, 2751
EcoO109I	RGGNCCY	3 cut(s)	110, 2584, 3175
EcoRI	GAATTC	1 cut(s)	2617
EcoRII	CCWGG	5 cut(s)	1159, 1959, 2131, 2874, 3106
EcoRV	GATATC	2 cut(s)	3487, 3988
EcoT14I	CCWWGG	4 cut(s)	1352, 2404, 2733, 3169
EcoT22I	ATGCAT	1 cut(s)	1431
EcoT38I	GRGCYC	4 cut(s)	339, 1848, 2701, 3091
ErhI	CCWWGG	4 cut(s)	1352, 2404, 2733, 3169
Esp3I	CGTCTC	2 cut(s)	313, 3657
FalI	AAGNNNNNCTT	2 cut(s)	4093, 4125
FauI	CCCGC	3 cut(s)	110, 1443, 2495
FauNDI	CATATG	1 cut(s)	3867
FbaI	TGATCA	1 cut(s)	2247
FokI	GGATG	9 cut(s)	521, 625, 734, 1330, 1637, 1907, 2666, 3859, 3896
FriOI	GRGCYC	4 cut(s)	339, 1848, 2701, 3091
FspAI	RTGCGCAY	1 cut(s)	296
FspI	TGCGCA	1 cut(s)	296
GlaI	GCGC	3 cut(s)	296, 944, 965
GsaI	CCCAGC	3 cut(s)	470, 1857, 3066
GsuI	CTGGAG	3 cut(s)	1800, 2772, 4139
HaeII	RGCGCY	2 cut(s)	946, 967
HaeIII	GGCC	6 cut(s)	1451, 2091, 2313, 2738, 3285, 4174
HapII	CCGG	5 cut(s)	170, 563, 1453, 3144, 3286
HgaI	GACGC	2 cut(s)	540, 3121
HhaI	GCGC	3 cut(s)	297, 945, 966
Hin1I	GRCGYC	1 cut(s)	322
Hin6I	GCGC	3 cut(s)	295, 943, 964
HinP1I	GCGC	3 cut(s)	295, 943, 964
HincII	GTYRAC	2 cut(s)	1213, 4021
HindII	GTYRAC	2 cut(s)	1213, 4021
HindIII	AAGCTT	1 cut(s)	1306
HpaI	GTTAAC	1 cut(s)	1213
HpaII	CCGG	5 cut(s)	170, 563, 1453, 3144, 3286
HphI	GGTGA	5 cut(s)	1014, 1259, 1424, 3533, 3914
Hpy166II	GTNNAC	7 cut(s)	238, 1213, 2177, 2339, 3221, 4009, 4021
Hpy188III	TCNNGA	9 cut(s)	19, 1091, 2828, 2963, 3345, 3382, 3389, 3512, 4118
Hpy8I	GTNNAC	7 cut(s)	238, 1213, 2177, 2339, 3221, 4009, 4021
Hpy99I	CGWCG	2 cut(s)	1820, 2337
HpyCH4IV	ACGT	7 cut(s)	322, 1096, 1281, 1469, 1547, 3162, 4147
HpyF10VI	GCNNNNNNNGC	9 cut(s)	818, 1435, 1675, 1937, 1956, 2512, 3068, 3149, 3266
HpyF3I	CTNAG	5 cut(s)	1175, 1341, 2478, 3318, 3510
HpySE526I	ACGT	7 cut(s)	322, 1096, 1281, 1469, 1547, 3162, 4147
Hsp92I	GRCGYC	1 cut(s)	322
HspAI	GCGC	3 cut(s)	295, 943, 964
KflI	GGGWCCC	1 cut(s)	3175
Ksp22I	TGATCA	1 cut(s)	2247
KspAI	GTTAAC	1 cut(s)	1213
LguI	GCTCTTC	1 cut(s)	3455
Lsp1109I	GCAGC	8 cut(s)	833, 952, 1924, 1927, 2830, 3781, 3784, 4171
LweI	GCATC	9 cut(s)	306, 1321, 1601, 2131, 2382, 3362, 3382, 3400, 4056
MabI	ACCWGGT	1 cut(s)	2131
MaeII	ACGT	7 cut(s)	322, 1096, 1281, 1469, 1547, 3162, 4147
MaeIII	GTNAC	6 cut(s)	1247, 1753, 1835, 2030, 2992, 3163
MbiI	CCGCTC	3 cut(s)	1631, 3350, 3976
MfeI	CAATTG	2 cut(s)	2004, 3072
MflI	RGATCY	3 cut(s)	2273, 2627, 2665
MlsI	TGGCCA	1 cut(s)	2313
MluNI	TGGCCA	1 cut(s)	2313
MlyI	GAGTC	4 cut(s)	551, 1743, 2818, 3810
MmeI	TCCRAC	3 cut(s)	30, 817, 1033
Mox20I	TGGCCA	1 cut(s)	2313
Mph1103I	ATGCAT	1 cut(s)	1431
MroXI	GAANNNNTTC	2 cut(s)	3014, 3504
MscI	TGGCCA	1 cut(s)	2313
MslI	CAYNNNNRTG	3 cut(s)	683, 4052, 4082
Msp20I	TGGCCA	1 cut(s)	2313
MspA1I	CMGCKG	4 cut(s)	2540, 3007, 3775, 4162
MspI	CCGG	5 cut(s)	170, 563, 1453, 3144, 3286
MspR9I	CCNGG	8 cut(s)	170, 171, 1161, 1453, 1961, 2133, 2876, 3108
MunI	CAATTG	2 cut(s)	2004, 3072
Mva1269I	GAATGC	1 cut(s)	297
MvaI	CCWGG	5 cut(s)	1161, 1961, 2133, 2876, 3108
MwoI	GCNNNNNNNGC	9 cut(s)	818, 1435, 1675, 1937, 1956, 2512, 3068, 3149, 3266
NciI	CCSGG	3 cut(s)	170, 171, 1453
NdeI	CATATG	1 cut(s)	3867
NlaIV	GGNNCC	7 cut(s)	99, 111, 336, 1165, 2667, 3176, 3177
NmuCI	GTSAC	2 cut(s)	1247, 2030
NsbI	TGCGCA	1 cut(s)	296
NsiI	ATGCAT	1 cut(s)	1431
NspI	RCATGY	5 cut(s)	138, 1433, 2218, 2557, 2745
PacI	TTAATTAA	1 cut(s)	2064
PaeI	GCATGC	1 cut(s)	2218
PagI	TCATGA	1 cut(s)	3381
PciI	ACATGT	2 cut(s)	2553, 2741
PciSI	GCTCTTC	1 cut(s)	3455
PctI	GAATGC	1 cut(s)	297
PdmI	GAANNNNTTC	2 cut(s)	3014, 3504
PflMI	CCANNNNNTGG	3 cut(s)	929, 1508, 2497
PfoI	TCCNGGA	1 cut(s)	2874
Ple19I	CGATCG	1 cut(s)	3862
PleI	GAGTC	4 cut(s)	550, 1742, 2818, 3809
PpsI	GAGTC	4 cut(s)	550, 1742, 2818, 3809
PpuMI	RGGWCCY	3 cut(s)	110, 2584, 3175
PscI	ACATGT	2 cut(s)	2553, 2741
PshBI	ATTAAT	2 cut(s)	2060, 3615
PsiI	TTATAA	1 cut(s)	434
Psp124BI	GAGCTC	3 cut(s)	1848, 2701, 3091
Psp1406I	AACGTT	1 cut(s)	3162
Psp5II	RGGWCCY	3 cut(s)	110, 2584, 3175
Psp6I	CCWGG	5 cut(s)	1159, 1959, 2131, 2874, 3106
PspFI	CCCAGC	3 cut(s)	466, 1853, 3062
PspGI	CCWGG	5 cut(s)	1159, 1959, 2131, 2874, 3106
PspN4I	GGNNCC	7 cut(s)	99, 111, 336, 1165, 2667, 3176, 3177
PspPI	GGNCC	7 cut(s)	97, 110, 1145, 1450, 2584, 3175, 4172
PspPPI	RGGWCCY	3 cut(s)	110, 2584, 3175
PsrI	GAACNNNNNNTAC	4 cut(s)	250, 282, 3582, 3614
PstI	CTGCAG	2 cut(s)	823, 3238
PstNI	CAGNNNCTG	2 cut(s)	946, 2477
PsuI	RGATCY	3 cut(s)	2273, 2627, 2665
PvuI	CGATCG	1 cut(s)	3862
PvuII	CAGCTG	3 cut(s)	2540, 3007, 4162
RseI	CAYNNNNRTG	3 cut(s)	683, 4052, 4082
SacI	GAGCTC	3 cut(s)	1848, 2701, 3091
SapI	GCTCTTC	1 cut(s)	3455
Sau96I	GGNCC	7 cut(s)	97, 110, 1145, 1450, 2584, 3175, 4172
ScaI	AGTACT	2 cut(s)	229, 3240
SchI	GAGTC	4 cut(s)	551, 1743, 2818, 3810
ScrFI	CCNGG	8 cut(s)	170, 171, 1161, 1453, 1961, 2133, 2876, 3108
SexAI	ACCWGGT	1 cut(s)	2131
SfaNI	GCATC	9 cut(s)	306, 1321, 1601, 2131, 2382, 3362, 3382, 3400, 4056
SfcI	CTRYAG	5 cut(s)	819, 2631, 3234, 3357, 3405
SinI	GGWCC	5 cut(s)	97, 110, 1145, 2584, 3175
SmaI	CCCGGG	1 cut(s)	171
SmiMI	CAYNNNNRTG	3 cut(s)	683, 4052, 4082
SmlI	CTYRAG	2 cut(s)	2156, 3242
SmoI	CTYRAG	2 cut(s)	2156, 3242
SpeI	ACTAGT	1 cut(s)	2171
SphI	GCATGC	1 cut(s)	2218
SspI	AATATT	4 cut(s)	56, 1080, 1114, 2188
SstI	GAGCTC	3 cut(s)	1848, 2701, 3091
StyD4I	CCNGG	8 cut(s)	168, 169, 1159, 1451, 1959, 2131, 2874, 3106
StyI	CCWWGG	4 cut(s)	1352, 2404, 2733, 3169
TaiI	ACGT	7 cut(s)	325, 1099, 1284, 1472, 1550, 3165, 4150
TaqI	TCGA	7 cut(s)	300, 1009, 2359, 3021, 3057, 3546, 4181
TatI	WGTACW	7 cut(s)	227, 870, 1496, 2020, 3218, 3238, 3675
TauI	GCSGC	6 cut(s)	90, 691, 2088, 2091, 2147, 3353
TseFI	GTSAC	2 cut(s)	1247, 2030
TseI	GCWGC	8 cut(s)	821, 940, 1937, 1940, 2843, 3772, 3794, 4159
Tsp45I	GTSAC	2 cut(s)	1247, 2030
TspGWI	ACGGA	1 cut(s)	1833
TspMI	CCCGGG	1 cut(s)	169
Van91I	CCANNNNNTGG	3 cut(s)	929, 1508, 2497
VneI	GTGCAC	1 cut(s)	2337
VpaK11BI	GGWCC	5 cut(s)	97, 110, 1145, 2584, 3175
VspI	ATTAAT	2 cut(s)	2060, 3615
XagI	CCTNNNNNAGG	2 cut(s)	81, 2751
XceI	RCATGY	5 cut(s)	138, 1433, 2218, 2557, 2745
XcmI	CCANNNNNNNNNTGG	3 cut(s)	1677, 2321, 2984
XmaI	CCCGGG	1 cut(s)	169
XmnI	GAANNNNTTC	2 cut(s)	3014, 3504
ZraI	GACGTC	1 cut(s)	323
ZrmI	AGTACT	2 cut(s)	229, 3240
Zsp2I	ATGCAT	1 cut(s)	1431

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.