Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr02

Orthogroup ID

OG0002476

Physical Location & Seq

Genomic Coordinates Reverse (-)

10208867 .. 10210309

Gene Structure 1443 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD02G1125800.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 711 bp

ATGAATGGTCCAGATGCAGCCTGCAAATTTTTGGGCAATGCCCAGTTGCTTGCGCACTATTGGTTTTTGCATAATGCCTTTTCGATTGGAATTGGAGATATGGTTGTTGATCTGGCAACAACGGAAAAAATCAAGCAGACAATTTCTGAGGCAAAAGATGAGGTGGAAGGGCTTGTTAGTAAAGCCCGGTCCAAGCAGCTGGAGGCTGAACCTGGACGAACTTTGGTGGACTCGTTTGAAAACAAAGTGAACCAGGTGTTGAATAGGGCTCGTGATAAAGCTGGAAGTAGTGCTGAAAAGAGTCTATCCGAGGTGAACAATCTTAAGGCCATGGTTACAGCTGGATCCAAAAGGAATTTTATAAAAATGTCACATATGATTGCCTGTGTAGGGCAGCTGAACATTGAAGGTAAGAGAACCCCGTATGGGTTGATAGACCACCCCCCATTGCCCCACCTTACTGAAGATGACTATGGACCAGAATGCCGTGGGAAAGGTCTCACAGATACTGTAGTTACGACATATGAGATTGGGTACATCCAAAGGAGACTAGTGCATGCTTTGGAGGATATTATGGTGCAGTATGATGGCACCATATGTAATTCTTTGGGTGATGTCATTCAGTTTGTATATGGAGAAGATAGGATGGATGCTGCTTGGTTAGAATCTCAAAAGCTGGACTCTTTAAAAATGAAAAAAATAAGAATTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003676 GO:0003677 GO:0003824 GO:0003899 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005737 GO:0005773 GO:0005911 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009506 GO:0009507 GO:0009536 GO:0009987 GO:0016070 GO:0016591 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0030054 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034062 GO:0034641 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0055029 GO:0055044 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097159 GO:0097747 GO:0140098 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko05016 ko05168 ko05169 map00230 map00240 map01100 map03020 map05016 map05168 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 RNA_pol_Rpb1_6 RNA_pol_Rpb1_7 RNA_pol_Rpb1_R

Protein Analysis

237

Amino Acids

26.23

Weight (kDa)

6.09

Isoelectric Point (pI)

37.08

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb1_4	PF05000	62 - 164	1.3e-24	RNA polymerase Rpb1, domain 4
RNA_pol_Rpb1_5	PF04998	165 - 215	1.3e-14	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)

Image

Tree File

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Orthologous Genes (Group: OG0002476)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G35800 AT4G35800
fragaria_vesca	FvH4_1g11070 FvH4_1g11070 FvH4_1g11070 FvH4_1g11070 FvH4_1g11070 FvH4_1g11070 FvH4_1g11070 FvH4_1g11070
malus_domestica	MD02G1123200.v1.1 MD02G1123400.v1.1 MD02G1125500.v1.1 MD02G1125800.v1.1 MD15G1237200.v1.1
prunus_persica	Prupe.7G175200_v2.0.a1
pyrus_communis	pycom02g09610 pycom15g21110
rosa_chinensis	RchiOBHm_Chr2g0098321 RchiOBHm_Chr2g0098331
rosa_laevigata	RLG00000016790 RLG00000016791
rosa_multiflora	Rmu_co8358581.1_g000001 Rmu_sc0003434.1_g000008 Rmu_sc0023772.1_g000002 Rmu_sc0042863.1_g000001
rosa_roxburghii	Rroxscaffold_2G00144060 Rroxscaffold_2G00144070
rosa_rugosa	Rorug02G0072000 Rorug02G0072000 Rorug02G0072100
rosa_samantha	Rh2AG119100 Rh2AG119200 Rh2BG122300 Rh2BG122400 Rh2CG123900 Rh2CG124000 Rh2DG123900 Rh2DG124000
rosa_wichuraiana	Rw2G009330 Rw2G009340

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	362
Acc16I	TGCGCA	1 cut(s)	54
AccB1I	GGYRCC	1 cut(s)	590
AclWI	GGATC	2 cut(s)	339, 352
AcsI	RAATTY	3 cut(s)	26, 355, 705
AcuI	CTGAAG	1 cut(s)	483
AfaI	GTAC	1 cut(s)	536
AfiI	CCNNNNNNNGG	2 cut(s)	390, 426
AflII	CTTAAG	1 cut(s)	323
AgsI	TTSAA	3 cut(s)	239, 262, 407
AhlI	ACTAGT	1 cut(s)	550
AjnI	CCWGG	2 cut(s)	211, 252
AluBI	AGCT	5 cut(s)	199, 281, 341, 397, 676
AluI	AGCT	5 cut(s)	199, 281, 341, 397, 676
Alw26I	GTCTC	2 cut(s)	503, 541
AlwI	GGATC	2 cut(s)	339, 352
AlwNI	CAGNNNCTG	1 cut(s)	509
AoxI	GGCC	1 cut(s)	327
ApeKI	GCWGC	4 cut(s)	17, 196, 394, 653
ApoI	RAATTY	3 cut(s)	26, 355, 705
AspLEI	GCGC	1 cut(s)	55
AspS9I	GGNCC	3 cut(s)	8, 189, 476
AsuC2I	CCSGG	1 cut(s)	187
AsuHPI	GGTGA	2 cut(s)	325, 623
AvaII	GGWCC	3 cut(s)	8, 189, 476
BaeI	ACNNNNGTAYC	2 cut(s)	498, 531
BamHI	GGATCC	1 cut(s)	344
BanI	GGYRCC	1 cut(s)	590
BanII	GRGCYC	1 cut(s)	271
BauI	CACGAG	1 cut(s)	270
BbvI	GCAGC	4 cut(s)	29, 208, 406, 640
BccI	CCATC	2 cut(s)	581, 640
BceAI	ACGGC	1 cut(s)	471
BciT130I	CCWGG	2 cut(s)	213, 254
BcnI	CCSGG	1 cut(s)	187
BcoDI	GTCTC	2 cut(s)	503, 541
BcuI	ACTAGT	1 cut(s)	550
BfaI	CTAG	1 cut(s)	551
BfmI	CTRYAG	1 cut(s)	510
BfrI	CTTAAG	1 cut(s)	323
BisI	GCNGC	4 cut(s)	18, 197, 395, 654
BlsI	GCNGC	4 cut(s)	19, 198, 396, 655
Bme1390I	CCNGG	3 cut(s)	187, 213, 254
Bme18I	GGWCC	3 cut(s)	8, 189, 476
BmgT120I	GGNCC	3 cut(s)	8, 189, 476
BmiI	GGNNCC	2 cut(s)	346, 592
BmrFI	CCNGG	3 cut(s)	187, 213, 254
BmrI	ACTGGG	1 cut(s)	37
BmsI	GCATC	2 cut(s)	4, 640
BmuI	ACTGGG	1 cut(s)	37
BpmI	CTGGAG	1 cut(s)	221
BpuMI	CCSGG	1 cut(s)	187
BsaI	GGTCTC	1 cut(s)	503
BsaJI	CCNNGG	3 cut(s)	309, 330, 487
BsaXI	ACNNNNNCTCC	2 cut(s)	87, 117
Bsc4I	CCNNNNNNNGG	2 cut(s)	390, 426
Bse1I	ACTGG	1 cut(s)	43
Bse3DI	GCAATG	2 cut(s)	43, 446
BseBI	CCWGG	2 cut(s)	213, 254
BseDI	CCNNGG	3 cut(s)	309, 330, 487
BseGI	GGATG	3 cut(s)	537, 651, 655
BseLI	CCNNNNNNNGG	2 cut(s)	390, 426
BseMI	GCAATG	2 cut(s)	43, 446
BseMII	CTCAG	1 cut(s)	138
BseNI	ACTGG	1 cut(s)	43
BseXI	GCAGC	4 cut(s)	29, 208, 406, 640
BsgI	GTGCAG	1 cut(s)	599
BshFI	GGCC	1 cut(s)	329
BshNI	GGYRCC	1 cut(s)	590
BsiSI	CCGG	1 cut(s)	187
BslI	CCNNNNNNNGG	2 cut(s)	390, 426
BsmAI	GTCTC	2 cut(s)	503, 541
BsmI	GAATGC	1 cut(s)	488
BsnI	GGCC	1 cut(s)	329
Bso31I	GGTCTC	1 cut(s)	503
Bsp1286I	GDGCHC	1 cut(s)	271
Bsp143I	GATC	2 cut(s)	109, 344
Bsp19I	CCATGG	1 cut(s)	330
BspANI	GGCC	1 cut(s)	329
BspCNI	CTCAG	1 cut(s)	139
BspLI	GGNNCC	2 cut(s)	346, 592
BspPI	GGATC	2 cut(s)	339, 352
BspT107I	GGYRCC	1 cut(s)	590
BspTI	CTTAAG	1 cut(s)	323
BspTNI	GGTCTC	1 cut(s)	503
BsrDI	GCAATG	2 cut(s)	43, 446
BsrI	ACTGG	1 cut(s)	43
BssECI	CCNNGG	3 cut(s)	309, 330, 487
BssMI	GATC	2 cut(s)	109, 344
BssSI	CACGAG	1 cut(s)	270
BssT1I	CCWWGG	1 cut(s)	330
Bst2BI	CACGAG	1 cut(s)	270
Bst2UI	CCWGG	2 cut(s)	213, 254
Bst4CI	ACNGT	1 cut(s)	511
BstAFI	CTTAAG	1 cut(s)	323
BstC8I	GCNNGC	3 cut(s)	22, 51, 558
BstDEI	CTNAG	1 cut(s)	147
BstDSI	CCRYGG	2 cut(s)	330, 487
BstF5I	GGATG	3 cut(s)	537, 651, 655
BstHHI	GCGC	1 cut(s)	55
BstKTI	GATC	2 cut(s)	112, 347
BstMAI	GTCTC	2 cut(s)	503, 541
BstMBI	GATC	2 cut(s)	109, 344
BstNI	CCWGG	2 cut(s)	213, 254
BstNSI	RCATGY	1 cut(s)	560
BstSCI	CCNGG	3 cut(s)	185, 211, 252
BstSFI	CTRYAG	1 cut(s)	510
BstV1I	GCAGC	4 cut(s)	29, 208, 406, 640
BstX2I	RGATCY	1 cut(s)	344
BstXI	CCANNNNNNTGG	1 cut(s)	199
BstYI	RGATCY	1 cut(s)	344
BsuRI	GGCC	1 cut(s)	329
BtgI	CCRYGG	2 cut(s)	330, 487
BtsCI	GGATG	3 cut(s)	537, 651, 655
Cac8I	GCNNGC	3 cut(s)	22, 51, 558
CaiI	CAGNNNCTG	1 cut(s)	509
CfoI	GCGC	1 cut(s)	55
Cfr13I	GGNCC	3 cut(s)	8, 189, 476
CsiI	ACCWGGT	1 cut(s)	252
Csp6I	GTAC	1 cut(s)	535
CviAII	CATG	2 cut(s)	331, 557
CviQI	GTAC	1 cut(s)	535
DdeI	CTNAG	1 cut(s)	147
DpnI	GATC	2 cut(s)	111, 346
DpnII	GATC	2 cut(s)	109, 344
DraI	TTTAAA	1 cut(s)	687
Eco130I	CCWWGG	1 cut(s)	330
Eco24I	GRGCYC	1 cut(s)	271
Eco31I	GGTCTC	1 cut(s)	503
Eco47I	GGWCC	3 cut(s)	8, 189, 476
Eco57I	CTGAAG	1 cut(s)	483
EcoRII	CCWGG	2 cut(s)	211, 252
EcoT14I	CCWWGG	1 cut(s)	330
EcoT38I	GRGCYC	1 cut(s)	271
ErhI	CCWWGG	1 cut(s)	330
FaeI	CATG	2 cut(s)	334, 560
FatI	CATG	2 cut(s)	330, 556
FauNDI	CATATG	3 cut(s)	375, 523, 596
Fnu4HI	GCNGC	4 cut(s)	18, 197, 395, 654
FokI	GGATG	3 cut(s)	524, 658, 662
FriOI	GRGCYC	1 cut(s)	271
Fsp4HI	GCNGC	4 cut(s)	18, 197, 395, 654
FspBI	CTAG	1 cut(s)	551
FspI	TGCGCA	1 cut(s)	54
GlaI	GCGC	1 cut(s)	54
GluI	GCNGC	4 cut(s)	18, 197, 395, 654
GsuI	CTGGAG	1 cut(s)	221
HaeIII	GGCC	1 cut(s)	329
HapII	CCGG	1 cut(s)	187
HhaI	GCGC	1 cut(s)	55
Hin1II	CATG	2 cut(s)	334, 560
Hin6I	GCGC	1 cut(s)	53
HinP1I	GCGC	1 cut(s)	53
HinfI	GANTC	4 cut(s)	230, 301, 665, 680
HpaII	CCGG	1 cut(s)	187
HphI	GGTGA	2 cut(s)	325, 623
Hpy166II	GTNNAC	3 cut(s)	229, 250, 316
Hpy188I	TCNGA	2 cut(s)	148, 310
Hpy188III	TCNNGA	2 cut(s)	11, 272
Hpy8I	GTNNAC	3 cut(s)	229, 250, 316
HpyAV	CCTTC	2 cut(s)	161, 401
HpyCH4III	ACNGT	1 cut(s)	511
HpyCH4V	TGCA	5 cut(s)	17, 24, 70, 556, 580
HpyF3I	CTNAG	1 cut(s)	147
Hsp92II	CATG	2 cut(s)	334, 560
HspAI	GCGC	1 cut(s)	53
Kzo9I	GATC	2 cut(s)	109, 344
Lsp1109I	GCAGC	4 cut(s)	29, 208, 406, 640
LweI	GCATC	2 cut(s)	4, 640
MabI	ACCWGGT	1 cut(s)	252
MaeI	CTAG	1 cut(s)	551
MaeIII	GTNAC	3 cut(s)	334, 369, 514
MalI	GATC	2 cut(s)	111, 346
MboI	GATC	2 cut(s)	109, 344
MboII	GAAGA	2 cut(s)	476, 650
MflI	RGATCY	1 cut(s)	344
MhlI	GDGCHC	1 cut(s)	271
MluCI	AATT	6 cut(s)	26, 90, 141, 355, 601, 705
MlyI	GAGTC	3 cut(s)	224, 310, 674
MnlI	CCTC	5 cut(s)	142, 154, 196, 304, 559
MseI	TTAA	2 cut(s)	324, 686
MspA1I	CMGCKG	3 cut(s)	199, 341, 397
MspCI	CTTAAG	1 cut(s)	323
MspI	CCGG	1 cut(s)	187
MspR9I	CCNGG	3 cut(s)	187, 213, 254
Mva1269I	GAATGC	1 cut(s)	488
MvaI	CCWGG	2 cut(s)	213, 254
NciI	CCSGG	1 cut(s)	187
NcoI	CCATGG	1 cut(s)	330
NdeI	CATATG	3 cut(s)	375, 523, 596
NdeII	GATC	2 cut(s)	109, 344
NlaIII	CATG	2 cut(s)	334, 560
NlaIV	GGNNCC	2 cut(s)	346, 592
NmuCI	GTSAC	1 cut(s)	369
NsbI	TGCGCA	1 cut(s)	54
NspI	RCATGY	1 cut(s)	560
PaeI	GCATGC	1 cut(s)	560
PctI	GAATGC	1 cut(s)	488
PfeI	GAWTC	1 cut(s)	665
PkrI	GCNGC	4 cut(s)	19, 198, 396, 655
PleI	GAGTC	3 cut(s)	224, 309, 674
PpsI	GAGTC	3 cut(s)	224, 309, 674
PsiI	TTATAA	1 cut(s)	362
Psp6I	CCWGG	2 cut(s)	211, 252
PspGI	CCWGG	2 cut(s)	211, 252
PspN4I	GGNNCC	2 cut(s)	346, 592
PspPI	GGNCC	3 cut(s)	8, 189, 476
PstNI	CAGNNNCTG	1 cut(s)	509
PsuI	RGATCY	1 cut(s)	344
PvuII	CAGCTG	3 cut(s)	199, 341, 397
RsaI	GTAC	1 cut(s)	536
RsaNI	GTAC	1 cut(s)	535
SaqAI	TTAA	2 cut(s)	324, 686
SatI	GCNGC	4 cut(s)	18, 197, 395, 654
Sau3AI	GATC	2 cut(s)	109, 344
Sau96I	GGNCC	3 cut(s)	8, 189, 476
SchI	GAGTC	3 cut(s)	224, 310, 674
ScrFI	CCNGG	3 cut(s)	187, 213, 254
SduI	GDGCHC	1 cut(s)	271
SexAI	ACCWGGT	1 cut(s)	252
SfaNI	GCATC	2 cut(s)	4, 640
SfcI	CTRYAG	1 cut(s)	510
SinI	GGWCC	3 cut(s)	8, 189, 476
SmlI	CTYRAG	1 cut(s)	323
SmoI	CTYRAG	1 cut(s)	323
SpeI	ACTAGT	1 cut(s)	550
SphI	GCATGC	1 cut(s)	560
Sse9I	AATT	6 cut(s)	26, 90, 141, 355, 601, 705
SspMI	CTAG	1 cut(s)	551
StyD4I	CCNGG	3 cut(s)	185, 211, 252
StyI	CCWWGG	1 cut(s)	330
TaaI	ACNGT	1 cut(s)	511
TaqI	TCGA	1 cut(s)	83
TasI	AATT	6 cut(s)	26, 90, 141, 355, 601, 705
TfiI	GAWTC	1 cut(s)	665
Tru1I	TTAA	2 cut(s)	324, 686
Tru9I	TTAA	2 cut(s)	324, 686
TseFI	GTSAC	1 cut(s)	369
TseI	GCWGC	4 cut(s)	17, 196, 394, 653
Tsp45I	GTSAC	1 cut(s)	369
TspDTI	ATGAA	2 cut(s)	17, 707
TspGWI	ACGGA	1 cut(s)	137
Vha464I	CTTAAG	1 cut(s)	323
VpaK11BI	GGWCC	3 cut(s)	8, 189, 476
XapI	RAATTY	3 cut(s)	26, 355, 705
XceI	RCATGY	1 cut(s)	560
XspI	CTAG	1 cut(s)	551

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