Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr05

Orthogroup ID

OG0004335

Physical Location & Seq

Genomic Coordinates Reverse (-)

18714986 .. 18718893

Gene Structure 3908 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD05G1087400.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 957 bp

ATGGAAGGCAAATCGTACCAAAGGCTCCCGCGCGTCAAAATCCGCGAAATGCGTGACGACTACGTGAAGTTTGAGCTCCGCGACACTGACGCCAGCGTCGCCAACGCGCTTCGCCGCGTCATGATTGCCGAGGTCCCCACCGTCGCCATCGACCTCGTCGAGATCGAGATTAACTCCTCCGTCCTCAACGACGAGTTCATCGCCCACCGGCTTGGCCTCATCCCCCTCACCTCCGACCGCGCCATGAGCATGCGCTTCTCACGTGACTGCGACGCCTGCGACGGCGACGGCCAGTGCGAGTTCTGCTCCGTCGAGTTCCATCTCCGCGCCAAGTGCCACTCCGACCAAACCCTAGATGTCACCAGCAAGGACCTCCTCAGCTCCGACCACACCGTCGTCCCCGTTGATTTCTCTGATTCCGCCGGCTTGGAATCCTCCGAACAAAAGGGAATTATCATTGTGAAGTTGCGAAGGGGGCAGGAACTGAGGCTGAGGGCCATTGCCAGAAAGGGGATTGGCAAAGATCATGCTAAGTGGTCACCGGCAGCCACTGTCACTTTCATGTATGAACCCGACATTCGAATCAATGAGGAGCTGATGGATACTTTGACTCTGGAGGAGAAGAAGGCTTGGGTTGATAGTAGTCCTACCAAAGTCTTTGACATTGATCCTAAAACCGACAAGGTCGTGGTAGTTGATCCTGAAGCATACACCTATGATGATGAAGTGATCAAGAAAGCAGAAGCTATGGGGAAGTCTGGGCTTGTGGATATCAGTGCAAGGGAAGATAGCTTTATATTCACAGTGGAATCTACCGGTGCGATTAAAGCTGCTCAGTTACTTCTCAATGCCATAGAAGTCTTGAAACAGAAGCTGGACGCAGTGCGCCTTTCTGAGGATACTGTAGCAGCCGATGACCAGTTTGGTGAATTAGGTGCACATATGCGAGGAGGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000418 GO:0000419 GO:0000428 GO:0003002 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005730 GO:0005737 GO:0007275 GO:0007389 GO:0008150 GO:0009791 GO:0009888 GO:0010374 GO:0010375 GO:0016591 GO:0030880 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0048856 GO:0055029 GO:0061695 GO:0070013 GO:0090558 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko05016 ko05169 map00230 map00240 map01100 map03020 map05016 map05169

Pfam Domains

Protein Families

RNA_pol_A_bac RNA_pol_L

Protein Analysis

319

Amino Acids

35.42

Weight (kDa)

4.91

Isoelectric Point (pI)

34.0

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_L	PF01193	23 - 292	5.2e-21	RNA polymerase Rpb3/Rpb11 dimerisation domain
RNA_pol_A_bac	PF01000	55 - 178	4.3e-20	RNA polymerase Rpb3/RpoA insert domain

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)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0004335)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G15400 AT2G15400 AT2G15430 AT2G15430 AT2G15430
fragaria_vesca	FvH4_2g05450
malus_domestica	MD05G1087400.v1.1 MD10G1096200.v1.1
prunus_persica	Prupe.8G132000_v2.0.a1 Prupe.8G132000_v2.0.a1 Prupe.8G132400_v2.0.a1
pyrus_communis	pycom05g08690
rosa_chinensis	RchiOBHm_Chr5g0063881 RchiOBHm_Chr6g0255731
rosa_laevigata	RLG00000014818 RLG00000027736
rosa_multiflora	Rmu_sc0009240.1_g000038 Rmu_ssc0000136.1_g000018
rosa_roxburghii	Rroxscaffold_7G00209720
rosa_rugosa	Rorug05G0560800 Rorug06G0006400
rosa_samantha	Rh1DG021100 Rh2DG345600 Rh2DG346900 Rh5CG269200 Rh6AG078900 Rh6BG072000 Rh6CG070100 Rh6DG067300 Rh7AG302700 Rh7CG321200
rosa_wichuraiana	Rw6G006800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	2 cut(s)	95, 392
AccII	CGCG	8 cut(s)	31, 33, 45, 81, 107, 117, 240, 327
AciI	CCGC	7 cut(s)	29, 43, 79, 115, 238, 325, 420
AclWI	GGATC	2 cut(s)	662, 692
AcoI	YGGCCR	1 cut(s)	289
AcuI	CTGAAG	1 cut(s)	723
AcvI	CACGTG	1 cut(s)	263
AcyI	GRCGYC	2 cut(s)	90, 273
AfaI	GTAC	1 cut(s)	17
AfiI	CCNNNNNNNGG	2 cut(s)	510, 895
AgeI	ACCGGT	1 cut(s)	815
AgsI	TTSAA	1 cut(s)	865
AluBI	AGCT	7 cut(s)	76, 381, 595, 746, 792, 830, 874
AluI	AGCT	7 cut(s)	76, 381, 595, 746, 792, 830, 874
Alw21I	GWGCWC	2 cut(s)	78, 940
Alw44I	GTGCAC	1 cut(s)	936
AlwI	GGATC	2 cut(s)	662, 692
AlwNI	CAGNNNCTG	3 cut(s)	484, 551, 874
AoxI	GGCC	3 cut(s)	214, 289, 495
ApaLI	GTGCAC	1 cut(s)	936
ApeKI	GCWGC	3 cut(s)	545, 830, 908
AsiGI	ACCGGT	1 cut(s)	815
AspLEI	GCGC	6 cut(s)	33, 109, 242, 255, 329, 888
AspS9I	GGNCC	3 cut(s)	133, 370, 495
AsuHPI	GGTGA	4 cut(s)	220, 352, 531, 938
AsuII	TTCGAA	1 cut(s)	580
AvaII	GGWCC	2 cut(s)	133, 370
BaeGI	GKGCMC	1 cut(s)	940
BanII	GRGCYC	1 cut(s)	78
BbrPI	CACGTG	1 cut(s)	263
Bbv12I	GWGCWC	2 cut(s)	78, 940
BbvCI	CCTCAGC	2 cut(s)	377, 491
BbvI	GCAGC	3 cut(s)	557, 817, 920
BccI	CCATC	3 cut(s)	155, 327, 592
BceAI	ACGGC	2 cut(s)	298, 304
BciVI	GTATCC	2 cut(s)	595, 892
BclI	TGATCA	1 cut(s)	729
BfaI	CTAG	1 cut(s)	353
BfmI	CTRYAG	1 cut(s)	903
BfuI	GTATCC	2 cut(s)	595, 892
BisI	GCNGC	4 cut(s)	115, 546, 831, 909
BlsI	GCNGC	4 cut(s)	116, 547, 832, 910
Bme18I	GGWCC	2 cut(s)	133, 370
BmgT120I	GGNCC	3 cut(s)	133, 370, 495
BmiI	GGNNCC	2 cut(s)	26, 135
BplI	GAGNNNNNCTC	4 cut(s)	158, 190, 290, 322
BpmI	CTGGAG	1 cut(s)	635
Bpu10I	CCTNAGC	2 cut(s)	377, 491
Bpu14I	TTCGAA	1 cut(s)	580
BsaAI	YACGTR	2 cut(s)	64, 263
BsaHI	GRCGYC	2 cut(s)	90, 273
BsaJI	CCNNGG	1 cut(s)	129
BsaWI	WCCGGW	1 cut(s)	815
Bsc4I	CCNNNNNNNGG	2 cut(s)	510, 895
Bse118I	RCCGGY	4 cut(s)	207, 422, 541, 815
Bse1I	ACTGG	2 cut(s)	292, 919
Bse3DI	GCAATG	1 cut(s)	498
BseDI	CCNNGG	1 cut(s)	129
BseGI	GGATG	1 cut(s)	219
BseLI	CCNNNNNNNGG	2 cut(s)	510, 895
BseMI	GCAATG	1 cut(s)	498
BseMII	CTCAG	5 cut(s)	391, 476, 482, 848, 885
BseNI	ACTGG	2 cut(s)	292, 919
BseRI	GAGGAG	4 cut(s)	166, 365, 605, 632
BseSI	GKGCMC	1 cut(s)	940
BseXI	GCAGC	3 cut(s)	557, 817, 920
Bsh1236I	CGCG	8 cut(s)	31, 33, 45, 81, 107, 117, 240, 327
Bsh1285I	CGRYCG	1 cut(s)	238
BshFI	GGCC	3 cut(s)	216, 291, 497
BshTI	ACCGGT	1 cut(s)	815
BsiEI	CGRYCG	1 cut(s)	238
BsiHKAI	GWGCWC	2 cut(s)	78, 940
BsiSI	CCGG	4 cut(s)	208, 423, 542, 816
BslFI	GGGAC	2 cut(s)	119, 383
BslI	CCNNNNNNNGG	2 cut(s)	510, 895
BsmFI	GGGAC	2 cut(s)	119, 383
BsnI	GGCC	3 cut(s)	216, 291, 497
Bsp119I	TTCGAA	1 cut(s)	580
Bsp1286I	GDGCHC	2 cut(s)	78, 940
Bsp143I	GATC	5 cut(s)	162, 523, 667, 697, 729
BspACI	CCGC	7 cut(s)	29, 43, 79, 115, 238, 325, 420
BspANI	GGCC	3 cut(s)	216, 291, 497
BspCNI	CTCAG	5 cut(s)	390, 477, 483, 847, 886
BspFNI	CGCG	8 cut(s)	31, 33, 45, 81, 107, 117, 240, 327
BspHI	TCATGA	1 cut(s)	120
BspLI	GGNNCC	2 cut(s)	26, 135
BspPI	GGATC	2 cut(s)	662, 692
BspT104I	TTCGAA	1 cut(s)	580
BsrDI	GCAATG	1 cut(s)	498
BsrFI	RCCGGY	4 cut(s)	207, 422, 541, 815
BsrI	ACTGG	2 cut(s)	292, 919
BssAI	RCCGGY	4 cut(s)	207, 422, 541, 815
BssECI	CCNNGG	1 cut(s)	129
BssMI	GATC	5 cut(s)	162, 523, 667, 697, 729
BssNI	GRCGYC	2 cut(s)	90, 273
Bst4CI	ACNGT	5 cut(s)	142, 394, 553, 805, 904
BstACI	GRCGYC	2 cut(s)	90, 273
BstBAI	YACGTR	2 cut(s)	64, 263
BstBI	TTCGAA	1 cut(s)	580
BstC8I	GCNNGC	4 cut(s)	94, 251, 277, 424
BstDEI	CTNAG	6 cut(s)	377, 485, 491, 531, 834, 894
BstEII	GGTNACC	1 cut(s)	537
BstENI	CCTNNNNNAGG	1 cut(s)	893
BstF5I	GGATG	1 cut(s)	219
BstFNI	CGCG	8 cut(s)	31, 33, 45, 81, 107, 117, 240, 327
BstHHI	GCGC	6 cut(s)	33, 109, 242, 255, 329, 888
BstKTI	GATC	5 cut(s)	165, 526, 670, 700, 732
BstMBI	GATC	5 cut(s)	162, 523, 667, 697, 729
BstMCI	CGRYCG	1 cut(s)	238
BstMWI	GCNNNNNNNGC	7 cut(s)	98, 246, 276, 303, 333, 475, 827
BstNSI	RCATGY	1 cut(s)	253
BstPI	GGTNACC	1 cut(s)	537
BstSFI	CTRYAG	1 cut(s)	903
BstSLI	GKGCMC	1 cut(s)	940
BstUI	CGCG	8 cut(s)	31, 33, 45, 81, 107, 117, 240, 327
BstV1I	GCAGC	3 cut(s)	557, 817, 920
BstXI	CCANNNNNNTGG	1 cut(s)	212
BsuI	GTATCC	2 cut(s)	595, 892
BsuRI	GGCC	3 cut(s)	216, 291, 497
BtgZI	GCGATG	1 cut(s)	184
BtsCI	GGATG	1 cut(s)	219
BtsI	GCAGTG	1 cut(s)	888
BtsIMutI	CAGTG	6 cut(s)	84, 299, 549, 781, 810, 888
Cac8I	GCNNGC	4 cut(s)	94, 251, 277, 424
CaiI	CAGNNNCTG	3 cut(s)	484, 551, 874
CciI	TCATGA	1 cut(s)	120
CfoI	GCGC	6 cut(s)	33, 109, 242, 255, 329, 888
Cfr10I	RCCGGY	4 cut(s)	207, 422, 541, 815
Cfr13I	GGNCC	3 cut(s)	133, 370, 495
CseI	GACGC	6 cut(s)	22, 85, 98, 106, 281, 887
Csp6I	GTAC	1 cut(s)	16
CspAI	ACCGGT	1 cut(s)	815
CviAII	CATG	5 cut(s)	121, 244, 250, 527, 562
CviQI	GTAC	1 cut(s)	16
DdeI	CTNAG	6 cut(s)	377, 485, 491, 531, 834, 894
DpnI	GATC	5 cut(s)	164, 525, 669, 699, 731
DpnII	GATC	5 cut(s)	162, 523, 667, 697, 729
DrdI	GACNNNNNNGTC	2 cut(s)	95, 392
DseDI	GACNNNNNNGTC	2 cut(s)	95, 392
EaeI	YGGCCR	1 cut(s)	289
EciI	GGCGGA	1 cut(s)	409
Ecl136II	GAGCTC	1 cut(s)	76
Eco24I	GRGCYC	1 cut(s)	78
Eco32I	GATATC	1 cut(s)	772
Eco47I	GGWCC	2 cut(s)	133, 370
Eco53kI	GAGCTC	1 cut(s)	76
Eco57I	CTGAAG	1 cut(s)	723
Eco72I	CACGTG	1 cut(s)	263
Eco91I	GGTNACC	1 cut(s)	537
EcoICRI	GAGCTC	1 cut(s)	76
EcoNI	CCTNNNNNAGG	1 cut(s)	893
EcoO109I	RGGNCCY	2 cut(s)	133, 370
EcoO65I	GGTNACC	1 cut(s)	537
EcoRV	GATATC	1 cut(s)	772
EcoT38I	GRGCYC	1 cut(s)	78
FaeI	CATG	5 cut(s)	124, 247, 253, 530, 565
FaqI	GGGAC	2 cut(s)	119, 383
FatI	CATG	5 cut(s)	120, 243, 249, 526, 561
FauI	CCCGC	1 cut(s)	36
FauNDI	CATATG	1 cut(s)	942
FbaI	TGATCA	1 cut(s)	729
Fnu4HI	GCNGC	4 cut(s)	115, 546, 831, 909
FokI	GGATG	1 cut(s)	206
FriOI	GRGCYC	1 cut(s)	78
Fsp4HI	GCNGC	4 cut(s)	115, 546, 831, 909
FspBI	CTAG	1 cut(s)	353
GlaI	GCGC	6 cut(s)	32, 108, 241, 254, 328, 887
GluI	GCNGC	4 cut(s)	115, 546, 831, 909
GsuI	CTGGAG	1 cut(s)	635
HaeIII	GGCC	3 cut(s)	216, 291, 497
HapII	CCGG	4 cut(s)	208, 423, 542, 816
HgaI	GACGC	6 cut(s)	22, 85, 98, 106, 281, 887
HhaI	GCGC	6 cut(s)	33, 109, 242, 255, 329, 888
Hin1I	GRCGYC	2 cut(s)	90, 273
Hin1II	CATG	5 cut(s)	124, 247, 253, 530, 565
Hin6I	GCGC	6 cut(s)	31, 107, 240, 253, 327, 886
HinP1I	GCGC	6 cut(s)	31, 107, 240, 253, 327, 886
HinfI	GANTC	5 cut(s)	416, 431, 582, 610, 809
HpaII	CCGG	4 cut(s)	208, 423, 542, 816
HphI	GGTGA	4 cut(s)	220, 352, 531, 938
Hpy166II	GTNNAC	1 cut(s)	938
Hpy188I	TCNGA	6 cut(s)	235, 343, 385, 415, 439, 895
Hpy188III	TCNNGA	7 cut(s)	121, 160, 166, 614, 701, 733, 862
Hpy8I	GTNNAC	1 cut(s)	938
Hpy99I	CGWCG	9 cut(s)	101, 146, 161, 194, 275, 284, 290, 314, 398
HpyAV	CCTTC	2 cut(s)	465, 619
HpyCH4III	ACNGT	5 cut(s)	142, 394, 553, 805, 904
HpyCH4IV	ACGT	2 cut(s)	63, 262
HpyCH4V	TGCA	2 cut(s)	779, 938
HpyF10VI	GCNNNNNNNGC	7 cut(s)	98, 246, 276, 303, 333, 475, 827
HpyF3I	CTNAG	6 cut(s)	377, 485, 491, 531, 834, 894
HpySE526I	ACGT	2 cut(s)	63, 262
Hsp92I	GRCGYC	2 cut(s)	90, 273
Hsp92II	CATG	5 cut(s)	124, 247, 253, 530, 565
HspAI	GCGC	6 cut(s)	31, 107, 240, 253, 327, 886
KroI	GCCGGC	1 cut(s)	422
KroNI	GCCGGC	1 cut(s)	424
Ksp22I	TGATCA	1 cut(s)	729
Kzo9I	GATC	5 cut(s)	162, 523, 667, 697, 729
LmnI	GCTCC	5 cut(s)	30, 81, 311, 386, 592
Lsp1109I	GCAGC	3 cut(s)	557, 817, 920
MaeI	CTAG	1 cut(s)	353
MaeII	ACGT	2 cut(s)	63, 262
MaeIII	GTNAC	6 cut(s)	53, 263, 358, 537, 553, 837
MalI	GATC	5 cut(s)	164, 525, 669, 699, 731
MboI	GATC	5 cut(s)	162, 523, 667, 697, 729
MboII	GAAGA	2 cut(s)	634, 797
MhlI	GDGCHC	2 cut(s)	78, 940
MluCI	AATT	2 cut(s)	450, 929
MlyI	GAGTC	1 cut(s)	604
MmeI	TCCRAC	3 cut(s)	258, 366, 408
MroNI	GCCGGC	1 cut(s)	422
MseI	TTAA	2 cut(s)	171, 825
MslI	CAYNNNNRTG	2 cut(s)	248, 560
MspI	CCGG	4 cut(s)	208, 423, 542, 816
MvnI	CGCG	8 cut(s)	31, 33, 45, 81, 107, 117, 240, 327
MwoI	GCNNNNNNNGC	7 cut(s)	98, 246, 276, 303, 333, 475, 827
NaeI	GCCGGC	1 cut(s)	424
NdeI	CATATG	1 cut(s)	942
NdeII	GATC	5 cut(s)	162, 523, 667, 697, 729
NgoMIV	GCCGGC	1 cut(s)	422
NlaIII	CATG	5 cut(s)	124, 247, 253, 530, 565
NlaIV	GGNNCC	2 cut(s)	26, 135
NmeAIII	GCCGAG	1 cut(s)	154
NmuCI	GTSAC	5 cut(s)	53, 263, 358, 537, 553
NspI	RCATGY	1 cut(s)	253
NspV	TTCGAA	1 cut(s)	580
PaeI	GCATGC	1 cut(s)	253
PagI	TCATGA	1 cut(s)	120
PcsI	WCGNNNNNNNCGW	3 cut(s)	156, 162, 294
PdiI	GCCGGC	1 cut(s)	424
PfeI	GAWTC	4 cut(s)	416, 431, 582, 809
PflFI	GACNNNGTC	2 cut(s)	155, 683
PinAI	ACCGGT	1 cut(s)	815
PkrI	GCNGC	4 cut(s)	116, 547, 832, 910
PleI	GAGTC	1 cut(s)	604
PmaCI	CACGTG	1 cut(s)	263
PmlI	CACGTG	1 cut(s)	263
PpsI	GAGTC	1 cut(s)	604
Ppu21I	YACGTR	2 cut(s)	64, 263
PpuMI	RGGWCCY	2 cut(s)	133, 370
Psp124BI	GAGCTC	1 cut(s)	78
Psp5II	RGGWCCY	2 cut(s)	133, 370
PspCI	CACGTG	1 cut(s)	263
PspEI	GGTNACC	1 cut(s)	537
PspN4I	GGNNCC	2 cut(s)	26, 135
PspPI	GGNCC	3 cut(s)	133, 370, 495
PspPPI	RGGWCCY	2 cut(s)	133, 370
PstNI	CAGNNNCTG	3 cut(s)	484, 551, 874
PsyI	GACNNNGTC	2 cut(s)	155, 683
RsaI	GTAC	1 cut(s)	17
RsaNI	GTAC	1 cut(s)	16
RseI	CAYNNNNRTG	2 cut(s)	248, 560
SacI	GAGCTC	1 cut(s)	78
SaqAI	TTAA	2 cut(s)	171, 825
SatI	GCNGC	4 cut(s)	115, 546, 831, 909
Sau3AI	GATC	5 cut(s)	162, 523, 667, 697, 729
Sau96I	GGNCC	3 cut(s)	133, 370, 495
SchI	GAGTC	1 cut(s)	604
SduI	GDGCHC	2 cut(s)	78, 940
SfcI	CTRYAG	1 cut(s)	903
SfuI	TTCGAA	1 cut(s)	580
SinI	GGWCC	2 cut(s)	133, 370
SmiMI	CAYNNNNRTG	2 cut(s)	248, 560
SphI	GCATGC	1 cut(s)	253
Sse9I	AATT	2 cut(s)	450, 929
SsiI	CCGC	7 cut(s)	29, 43, 79, 115, 238, 325, 420
SspMI	CTAG	1 cut(s)	353
SstI	GAGCTC	1 cut(s)	78
TaaI	ACNGT	5 cut(s)	142, 394, 553, 805, 904
TaiI	ACGT	2 cut(s)	66, 265
TaqI	TCGA	5 cut(s)	150, 159, 165, 312, 580
TasI	AATT	2 cut(s)	450, 929
TauI	GCSGC	1 cut(s)	117
TfiI	GAWTC	4 cut(s)	416, 431, 582, 809
Tru1I	TTAA	2 cut(s)	171, 825
Tru9I	TTAA	2 cut(s)	171, 825
TscAI	CASTG	6 cut(s)	91, 299, 556, 781, 810, 888
TseFI	GTSAC	5 cut(s)	53, 263, 358, 537, 553
TseI	GCWGC	3 cut(s)	545, 830, 908
Tsp45I	GTSAC	5 cut(s)	53, 263, 358, 537, 553
TspDTI	ATGAA	4 cut(s)	187, 550, 582, 738
TspGWI	ACGGA	2 cut(s)	169, 298
TspRI	CASTG	6 cut(s)	91, 299, 556, 781, 810, 888
Tth111I	GACNNNGTC	2 cut(s)	155, 683
VneI	GTGCAC	1 cut(s)	936
VpaK11BI	GGWCC	2 cut(s)	133, 370
XagI	CCTNNNNNAGG	1 cut(s)	893
XceI	RCATGY	1 cut(s)	253
XspI	CTAG	1 cut(s)	353

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