Rorug03G0348800

Phd finger protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000003
OG0013146
Physical Location & Seq
Forward (+)
42522317 .. 42523906
1590 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug03G0348800.1

Sequence Viewer

Length: 1590 bp
ATGCGCAGAAAAAAAATCCATTGGAGCAGTTGGGACAAGTTGTGTTTAACTAAGAAGGAAGGTGGTATGGGGTTCAAGAACCTGTATGCATATAATCTGGCAATGTTGGCCAAACAAGGATGGAGGCTAGTCACCAACCCTCAATCACTCATCGCCAGGTTGTTAAAAGCTCGATATTTTCCCAATAATTCGTTTTGGGAAGCGGATTTGGGAGATTCGCCATCCTTCTCATGGAGAAGCATTCTCAGTGGTAGACCAGTTTTGAAAGCTGGGATTCAGTGGAAAATTGGGGATGGTACTTCCGTGAGTATTTGGCATGACAAGTGGCTTCCAGTGCAGCAGCCAGTTCACCTCCCACAACCACCTCATACAGAGTTTCATGTTGTGGCTGATCTCATTAATAAGGAAACAAGGGAATGGATTCCTGCCTCGGTGTATGCCCTATTTCCTCATGACATAGCTGAGAAGATCTTGTGTATCCCACTTGGACGGCGCTCATGCTCCGATAGACTCATCTGGAGTCCAGAGAAGAAAGGTTTTTATTCTGTGAAATCTGCCTATTGGATAGCTAGAGCGCATGTCCTCCAAAATGTTCTCACATCTACGTCGCAGGGAGATCCTTTTAAAGAGCTTTGGCAGAAGCTTTGGAAGGCAAAGGTTCCAGGCAAGGTGAGTATTTGCACCTGGAGAGCTTGCAACAACCTCTTGTCTACAAGGGAACGGTTAACAAAAAAGGGCTATACTGGCAGCACAGAGTGTTTGCTTTGCCATTTTCACATGGAGGACAACCATCATATCTTCTGTAAGTGTCCCATAGCCATGCAAATACTCTCTGCTCCTCCGTTTAATCTCCAACACACTTTGCTGCCTAATATGAGTTTTAAGGAATGGATGCTTGAAAGAGCACAACACCTCCAACCTGACACCTTCGAGAAGCTCATGATAATTATTTGGGCTTTATGGAAAAACCGTAACAATGTGCTATGGGAAGGAAAGGCTCAATCTGTTCCCGATTTGGTTTTGGGTTGTTTTACATGGCTCACTGAGTTCCAGAAATCCAGAGGAACAGGTACATCCACTCAAAGATCGGTCCGACCAAAGTGGAAACCACCAACGCAGGGTTTCAAATTGAATGTTGATGCAGCCTTCCTACCAAATCAGCATCAAGGTGGACTCGGGGGAGTATTGAGGGACTCGACAGGTCAGTTCAAAGTTGCTTTCTTTCAGCATGTTGACCATGCAGCTTCACCAAAGCAGTGTGAACTGCTAGCCATTAGGGCGAGTTTGGATTTGTTATCCTCCTTAGATATACAAAATGTGTGTATAGAAAGTGATTGCATGGAAGCTGTCTACGAAGCAAACTGTACGAATTACGCTTTATTAGCTAATGGAGGTCTAGTGGATGATATTCAGGCAATGTGGCGTAGGCTGCAAGGGGTGACCATATGTCATACTCCGCGAACCTGTAATGCGGTGGCTCACCGCCTAGCAGCTTTAGGTTTTGAGGCTACTATAGGAGAAGTTTGGTTCGATTATGCCCCTCCTTGTATTATCGATGTACTACAGCACAATTGTGCCCAACTCCTCTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0035064 GO:0042393 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0140030 GO:0140034
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
ING

Protein Analysis

529

Amino Acids

60.21

Weight (kDa)

9.1

Isoelectric Point (pI)

43.64

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-RVT PF13966 181 - 275 4.5e-16 zinc-binding in reverse transcriptase
RVT_3 PF13456 378 - 498 9.6e-19 Reverse transcriptase-like
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0013146)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G24010
fragaria_vesca FvH4_4g05430 FvH4_4g05430 FvH4_4g05430 FvH4_4g05430
malus_domestica MD13G1230600.v1.1 MD13G1230700.v1.1
prunus_persica Prupe.1G056400_v2.0.a1
pyrus_communis pycom13g20300
rosa_chinensis RchiOBHm_Chr4g0396581
rosa_laevigata RLG00000009519
rosa_roxburghii Rroxscaffold_5G00341430
rosa_rugosa Rorug03G0348800 Rorug03G0348900
rosa_samantha Rh4AG070500 Rh4BG068400 Rh4DG065500
rosa_wichuraiana Rw4G005620

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 5
AccI GTMKAC 3 cut(s) 253, 710, 1350
AccII CGCG 1 cut(s) 1459
AciI CCGC 4 cut(s) 203, 1457, 1472, 1483
AclWI GGATC 1 cut(s) 611
AcoI YGGCCR 1 cut(s) 108
AdeI CACNNNGTG 1 cut(s) 756
AfaI GTAC 4 cut(s) 298, 1072, 1366, 1560
AfiI CCNNNNNNNGG 2 cut(s) 231, 1118
AgsI TTSAA 6 cut(s) 76, 265, 899, 1126, 1132, 1210
AhdI GACNNNNNGTC 1 cut(s) 1446
AjnI CCWGG 3 cut(s) 155, 661, 683
AleI CACNNNNGTG 1 cut(s) 1572
Alw21I GWGCWC 1 cut(s) 907
AlwI GGATC 1 cut(s) 611
Ama87I CYCGRG 1 cut(s) 1175
AoxI GGCC 1 cut(s) 108
ApeKI GCWGC 8 cut(s) 337, 340, 747, 865, 1142, 1241, 1429, 1490
AseI ATTAAT 1 cut(s) 399
Asp700I GAANNNNTTC 1 cut(s) 420
AspLEI GCGC 3 cut(s) 6, 495, 577
AspS9I GGNCC 1 cut(s) 1090
AsuHPI GGTGA 6 cut(s) 124, 341, 682, 1239, 1450, 1472
AsuNHI GCTAGC 1 cut(s) 1267
AvaI CYCGRG 1 cut(s) 1175
AvaII GGWCC 1 cut(s) 1090
BaeGI GKGCMC 1 cut(s) 1579
BaeI ACNNNNGTAYC 2 cut(s) 288, 321
BalI TGGCCA 1 cut(s) 110
Bbv12I GWGCWC 1 cut(s) 907
BbvI GCAGC 8 cut(s) 349, 352, 759, 852, 1154, 1253, 1416, 1502
BccI CCATC 4 cut(s) 114, 229, 287, 798
BceAI ACGGC 1 cut(s) 506
BciT130I CCWGG 3 cut(s) 157, 663, 685
BciVI GTATCC 1 cut(s) 488
BfaI CTAG 5 cut(s) 128, 570, 1268, 1397, 1487
BfmI CTRYAG 2 cut(s) 1512, 1562
BfoI RGCGCY 1 cut(s) 496
BfuI GTATCC 1 cut(s) 488
BglI GCCNNNNNGGC 1 cut(s) 1277
BglII AGATCT 1 cut(s) 468
BisI GCNGC 8 cut(s) 338, 341, 748, 866, 1143, 1242, 1430, 1491
BlsI GCNGC 8 cut(s) 339, 342, 749, 867, 1144, 1243, 1431, 1492
Bme1390I CCNGG 3 cut(s) 157, 663, 685
Bme18I GGWCC 1 cut(s) 1090
BmeRI GACNNNNNGTC 1 cut(s) 1446
BmeT110I CYCGRG 1 cut(s) 1175
BmgT120I GGNCC 1 cut(s) 1090
BmiI GGNNCC 1 cut(s) 660
BmrFI CCNGG 3 cut(s) 157, 663, 685
BmsI GCATC 3 cut(s) 882, 1129, 1171
BmtI GCTAGC 1 cut(s) 1271
BpmI CTGGAG 2 cut(s) 538, 706
Bsa29I ATCGAT 1 cut(s) 1554
BsaJI CCNNGG 1 cut(s) 429
BsaXI ACNNNNNCTCC 4 cut(s) 897, 927, 1383, 1413
Bsc4I CCNNNNNNNGG 2 cut(s) 231, 1118
Bse1I ACTGG 4 cut(s) 257, 332, 344, 748
Bse3DI GCAATG 2 cut(s) 108, 1422
BseBI CCWGG 3 cut(s) 157, 663, 685
BseCI ATCGAT 1 cut(s) 1554
BseDI CCNNGG 1 cut(s) 429
BseGI GGATG 6 cut(s) 125, 221, 298, 897, 1073, 1408
BseLI CCNNNNNNNGG 2 cut(s) 231, 1118
BseMI GCAATG 2 cut(s) 108, 1422
BseMII CTCAG 3 cut(s) 259, 453, 1035
BseNI ACTGG 4 cut(s) 257, 332, 344, 748
BseRI GAGGAG 2 cut(s) 828, 1574
BseSI GKGCMC 1 cut(s) 1579
BseXI GCAGC 8 cut(s) 349, 352, 759, 852, 1154, 1253, 1416, 1502
BseYI CCCAGC 1 cut(s) 269
BsgI GTGCAG 1 cut(s) 356
Bsh1236I CGCG 1 cut(s) 1459
BshFI GGCC 1 cut(s) 110
BshVI ATCGAT 1 cut(s) 1554
BsiHKAI GWGCWC 1 cut(s) 907
BsiHKCI CYCGRG 1 cut(s) 1175
BslFI GGGAC 3 cut(s) 47, 795, 1205
BslI CCNNNNNNNGG 2 cut(s) 231, 1118
BsmFI GGGAC 3 cut(s) 47, 795, 1205
BsmI GAATGC 1 cut(s) 240
BsnI GGCC 1 cut(s) 110
BsoBI CYCGRG 1 cut(s) 1175
Bsp1286I GDGCHC 2 cut(s) 907, 1579
Bsp143I GATC 4 cut(s) 391, 468, 616, 1085
BspACI CCGC 4 cut(s) 203, 1457, 1472, 1483
BspANI GGCC 1 cut(s) 110
BspCNI CTCAG 3 cut(s) 258, 454, 1036
BspDI ATCGAT 1 cut(s) 1554
BspFNI CGCG 1 cut(s) 1459
BspHI TCATGA 2 cut(s) 451, 939
BspLI GGNNCC 1 cut(s) 660
BspOI GCTAGC 1 cut(s) 1271
BspPI GGATC 1 cut(s) 611
BsrDI GCAATG 2 cut(s) 108, 1422
BsrI ACTGG 4 cut(s) 257, 332, 344, 748
BssECI CCNNGG 1 cut(s) 429
BssMI GATC 4 cut(s) 391, 468, 616, 1085
Bst2UI CCWGG 3 cut(s) 157, 663, 685
Bst4CI ACNGT 3 cut(s) 723, 971, 1364
BstC8I GCNNGC 2 cut(s) 694, 1269
BstDEI CTNAG 5 cut(s) 51, 245, 462, 1044, 1303
BstEII GGTNACC 1 cut(s) 1438
BstF5I GGATG 6 cut(s) 125, 221, 298, 897, 1073, 1408
BstFNI CGCG 1 cut(s) 1459
BstH2I RGCGCY 1 cut(s) 496
BstHHI GCGC 3 cut(s) 6, 495, 577
BstKTI GATC 4 cut(s) 394, 471, 619, 1088
BstMBI GATC 4 cut(s) 391, 468, 616, 1085
BstMWI GCNNNNNNNGC 6 cut(s) 107, 334, 744, 1277, 1382, 1429
BstNI CCWGG 3 cut(s) 157, 663, 685
BstNSI RCATGY 2 cut(s) 581, 1232
BstPI GGTNACC 1 cut(s) 1438
BstSCI CCNGG 3 cut(s) 155, 661, 683
BstSFI CTRYAG 2 cut(s) 1512, 1562
BstSLI GKGCMC 1 cut(s) 1579
BstUI CGCG 1 cut(s) 1459
BstV1I GCAGC 8 cut(s) 349, 352, 759, 852, 1154, 1253, 1416, 1502
BstX2I RGATCY 2 cut(s) 468, 616
BstYI RGATCY 2 cut(s) 468, 616
Bsu15I ATCGAT 1 cut(s) 1554
BsuI GTATCC 1 cut(s) 488
BsuRI GGCC 1 cut(s) 110
BsuTUI ATCGAT 1 cut(s) 1554
BtgZI GCGATG 1 cut(s) 136
BtsCI GGATG 6 cut(s) 125, 221, 298, 897, 1073, 1408
BtsI GCAGTG 1 cut(s) 1262
BtsIMutI CAGTG 5 cut(s) 253, 284, 339, 1041, 1262
Cac8I GCNNGC 2 cut(s) 694, 1269
CciI TCATGA 2 cut(s) 451, 939
CfoI GCGC 3 cut(s) 6, 495, 577
Cfr13I GGNCC 1 cut(s) 1090
ClaI ATCGAT 1 cut(s) 1554
CpoI CGGWCCG 1 cut(s) 1090
Csp6I GTAC 4 cut(s) 297, 1071, 1365, 1559
CspI CGGWCCG 1 cut(s) 1090
CviQI GTAC 4 cut(s) 297, 1071, 1365, 1559
DdeI CTNAG 5 cut(s) 51, 245, 462, 1044, 1303
DpnI GATC 4 cut(s) 393, 470, 618, 1087
DpnII GATC 4 cut(s) 391, 468, 616, 1085
DraI TTTAAA 1 cut(s) 625
DraIII CACNNNGTG 1 cut(s) 756
DriI GACNNNNNGTC 1 cut(s) 1446
EaeI YGGCCR 1 cut(s) 108
Eam1105I GACNNNNNGTC 1 cut(s) 1446
Eco47I GGWCC 1 cut(s) 1090
Eco88I CYCGRG 1 cut(s) 1175
Eco91I GGTNACC 1 cut(s) 1438
EcoO65I GGTNACC 1 cut(s) 1438
EcoRII CCWGG 3 cut(s) 155, 661, 683
EcoT22I ATGCAT 1 cut(s) 91
FaqI GGGAC 3 cut(s) 47, 795, 1205
FauNDI CATATG 1 cut(s) 1445
FblI GTMKAC 3 cut(s) 253, 710, 1350
Fnu4HI GCNGC 8 cut(s) 338, 341, 748, 866, 1143, 1242, 1430, 1491
FokI GGATG 6 cut(s) 132, 208, 305, 904, 1060, 1415
Fsp4HI GCNGC 8 cut(s) 338, 341, 748, 866, 1143, 1242, 1430, 1491
FspBI CTAG 5 cut(s) 128, 570, 1268, 1397, 1487
FspI TGCGCA 1 cut(s) 5
GlaI GCGC 3 cut(s) 5, 494, 576
GluI GCNGC 8 cut(s) 338, 341, 748, 866, 1143, 1242, 1430, 1491
GsaI CCCAGC 1 cut(s) 273
GsuI CTGGAG 2 cut(s) 538, 706
HaeII RGCGCY 1 cut(s) 496
HaeIII GGCC 1 cut(s) 110
HhaI GCGC 3 cut(s) 6, 495, 577
Hin6I GCGC 3 cut(s) 4, 493, 575
HinP1I GCGC 3 cut(s) 4, 493, 575
HincII GTYRAC 2 cut(s) 726, 1234
HindII GTYRAC 2 cut(s) 726, 1234
HindIII AAGCTT 1 cut(s) 641
HinfI GANTC 7 cut(s) 215, 274, 421, 510, 520, 1173, 1193
HpaI GTTAAC 1 cut(s) 726
HphI GGTGA 6 cut(s) 124, 341, 682, 1239, 1450, 1472
Hpy166II GTNNAC 8 cut(s) 254, 349, 711, 726, 1172, 1234, 1262, 1351
Hpy188I TCNGA 3 cut(s) 505, 1094, 1589
Hpy188III TCNNGA 9 cut(s) 76, 452, 517, 524, 931, 940, 1010, 1051, 1059
Hpy8I GTNNAC 8 cut(s) 254, 349, 711, 726, 1172, 1234, 1262, 1351
Hpy99I CGWCG 1 cut(s) 610
HpyAV CCTTC 7 cut(s) 49, 53, 235, 643, 937, 983, 1156
HpyCH4III ACNGT 3 cut(s) 723, 971, 1364
HpyCH4IV ACGT 1 cut(s) 605
HpyCH4V TGCA 9 cut(s) 89, 337, 681, 696, 823, 1142, 1241, 1338, 1432
HpyF10VI GCNNNNNNNGC 6 cut(s) 107, 334, 744, 1277, 1382, 1429
HpyF3I CTNAG 5 cut(s) 51, 245, 462, 1044, 1303
HpySE526I ACGT 1 cut(s) 605
HspAI GCGC 3 cut(s) 4, 493, 575
KspAI GTTAAC 1 cut(s) 726
Kzo9I GATC 4 cut(s) 391, 468, 616, 1085
LmnI GCTCC 3 cut(s) 24, 506, 841
Lsp1109I GCAGC 8 cut(s) 349, 352, 759, 852, 1154, 1253, 1416, 1502
LweI GCATC 3 cut(s) 882, 1129, 1171
MaeI CTAG 5 cut(s) 128, 570, 1268, 1397, 1487
MaeII ACGT 1 cut(s) 605
MaeIII GTNAC 3 cut(s) 130, 971, 1438
MalI GATC 4 cut(s) 393, 470, 618, 1087
MboI GATC 4 cut(s) 391, 468, 616, 1085
MboII GAAGA 3 cut(s) 478, 541, 790
MfeI CAATTG 1 cut(s) 1570
MflI RGATCY 2 cut(s) 468, 616
MhlI GDGCHC 2 cut(s) 907, 1579
MlsI TGGCCA 1 cut(s) 110
MluCI AATT 6 cut(s) 187, 285, 945, 1127, 1369, 1570
MluNI TGGCCA 1 cut(s) 110
MlyI GAGTC 4 cut(s) 504, 529, 1167, 1187
MmeI TCCRAC 3 cut(s) 877, 940, 1117
Mox20I TGGCCA 1 cut(s) 110
Mph1103I ATGCAT 1 cut(s) 91
MroXI GAANNNNTTC 1 cut(s) 420
MscI TGGCCA 1 cut(s) 110
MseI TTAA 7 cut(s) 47, 164, 399, 624, 725, 846, 882
MslI CAYNNNNRTG 3 cut(s) 818, 1167, 1572
Msp20I TGGCCA 1 cut(s) 110
MspR9I CCNGG 3 cut(s) 157, 663, 685
MunI CAATTG 1 cut(s) 1570
Mva1269I GAATGC 1 cut(s) 240
MvaI CCWGG 3 cut(s) 157, 663, 685
MvnI CGCG 1 cut(s) 1459
MwoI GCNNNNNNNGC 6 cut(s) 107, 334, 744, 1277, 1382, 1429
NdeI CATATG 1 cut(s) 1445
NdeII GATC 4 cut(s) 391, 468, 616, 1085
NheI GCTAGC 1 cut(s) 1267
NlaIV GGNNCC 1 cut(s) 660
NmuCI GTSAC 2 cut(s) 130, 1438
NsbI TGCGCA 1 cut(s) 5
NsiI ATGCAT 1 cut(s) 91
NspI RCATGY 2 cut(s) 581, 1232
OliI CACNNNNGTG 1 cut(s) 1572
PagI TCATGA 2 cut(s) 451, 939
PctI GAATGC 1 cut(s) 240
PdmI GAANNNNTTC 1 cut(s) 420
PfeI GAWTC 3 cut(s) 215, 274, 421
PkrI GCNGC 8 cut(s) 339, 342, 749, 867, 1144, 1243, 1431, 1492
PleI GAGTC 4 cut(s) 504, 528, 1167, 1187
PpsI GAGTC 4 cut(s) 504, 528, 1167, 1187
PshBI ATTAAT 1 cut(s) 399
Psp6I CCWGG 3 cut(s) 155, 661, 683
PspEI GGTNACC 1 cut(s) 1438
PspFI CCCAGC 1 cut(s) 269
PspGI CCWGG 3 cut(s) 155, 661, 683
PspN4I GGNNCC 1 cut(s) 660
PspPI GGNCC 1 cut(s) 1090
PsuI RGATCY 2 cut(s) 468, 616
RsaI GTAC 4 cut(s) 298, 1072, 1366, 1560
RsaNI GTAC 4 cut(s) 297, 1071, 1365, 1559
RseI CAYNNNNRTG 3 cut(s) 818, 1167, 1572
Rsr2I CGGWCCG 1 cut(s) 1090
RsrII CGGWCCG 1 cut(s) 1090
SaqAI TTAA 7 cut(s) 47, 164, 399, 624, 725, 846, 882
SatI GCNGC 8 cut(s) 338, 341, 748, 866, 1143, 1242, 1430, 1491
Sau3AI GATC 4 cut(s) 391, 468, 616, 1085
Sau96I GGNCC 1 cut(s) 1090
SchI GAGTC 4 cut(s) 504, 529, 1167, 1187
ScrFI CCNGG 3 cut(s) 157, 663, 685
SduI GDGCHC 2 cut(s) 907, 1579
SfaNI GCATC 3 cut(s) 882, 1129, 1171
SfcI CTRYAG 2 cut(s) 1512, 1562
SinI GGWCC 1 cut(s) 1090
SmiMI CAYNNNNRTG 3 cut(s) 818, 1167, 1572
Sse9I AATT 6 cut(s) 187, 285, 945, 1127, 1369, 1570
SsiI CCGC 4 cut(s) 203, 1457, 1472, 1483
SspMI CTAG 5 cut(s) 128, 570, 1268, 1397, 1487
StyD4I CCNGG 3 cut(s) 155, 661, 683
TaaI ACNGT 3 cut(s) 723, 971, 1364
TaiI ACGT 1 cut(s) 608
TaqI TCGA 5 cut(s) 172, 930, 1196, 1530, 1554
TaqII GACCGA 1 cut(s) 1078
TasI AATT 6 cut(s) 187, 285, 945, 1127, 1369, 1570
TatI WGTACW 1 cut(s) 1558
TfiI GAWTC 3 cut(s) 215, 274, 421
Tru1I TTAA 7 cut(s) 47, 164, 399, 624, 725, 846, 882
Tru9I TTAA 7 cut(s) 47, 164, 399, 624, 725, 846, 882
TscAI CASTG 5 cut(s) 253, 284, 339, 1048, 1262
TseFI GTSAC 2 cut(s) 130, 1438
TseI GCWGC 8 cut(s) 337, 340, 747, 865, 1142, 1241, 1429, 1490
Tsp45I GTSAC 2 cut(s) 130, 1438
TspDTI ATGAA 1 cut(s) 368
TspGWI ACGGA 2 cut(s) 292, 831
TspRI CASTG 5 cut(s) 253, 284, 339, 1048, 1262
VpaK11BI GGWCC 1 cut(s) 1090
VspI ATTAAT 1 cut(s) 399
XceI RCATGY 2 cut(s) 581, 1232
XcmI CCANNNNNNNNNTGG 1 cut(s) 228
XmiI GTMKAC 3 cut(s) 253, 710, 1350
XmnI GAANNNNTTC 1 cut(s) 420
XspI CTAG 5 cut(s) 128, 570, 1268, 1397, 1487
Zsp2I ATGCAT 1 cut(s) 91
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.