Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr03

Orthogroup ID

OG0007965

Physical Location & Seq

Genomic Coordinates Reverse (-)

2416366 .. 2420187

Gene Structure 3822 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD03G1029700.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1185 bp

ATGTCGTCCGATACCGAAGATACGACGTCGGGTTCAGAGTCTGAAGCATCGGACTCTGCGAAGGCCAACTCCACGCTGGACTTCATAGAGAAGCTCTCAGATGTGCCAATGGGGCGGCTGCCCCCAAACATTGAATTCCAGAGGACACGTGTCGAGTGCAAGGCCGATGCTCCCATTCATACTGATACTTTTCAGTATAATGGTGCTTATGCATCAATGGGAGTCGATAATAACGTAGTGGATAGCTTCTGTGACAACTTTAAAGTTGAAGTTATTAATCTTACGGAGGATGAGATGGAGTTTGATATGATCGGCATTGATCCAGCACTTGCCAATGCATTCCGGAGAATCCTTATAGCTGAGGTTCCCACAATGGCTATTGAAAAAGTTCTTATTGCAAACAATACATCAGTAATCCAAGATGAAGTACTTGCTCACAGGTTGGGTCTCATTCCGATCAAGGTTGACCCTAGATTATTTGAATTTACAGAAAATAATACACCAAATGAAAAGAACACCATCGTTTTTAAGCTCCATGTTCGCTGTGAACGAGGGGGGCAGCGTATTTCAGTAAAGTCAAAAGAATTGATTTGGTTGCCAAATGGGAGTGAGTATCCTTTGGAATCGCAAGATACCAAGTCAGAGTCATCCTCAAAACCAAAAACATATACATCATTTACTTGCAGTCAGGATTCCTTGCCAGAATTTTCCGACAATCCAATTTACCCCACGAGTGGAGACATTACAATTGCTAGACTAGGCCCTGGTCAGGAAATTGATCTGGAAGCACATGCTGTTAAGGGTATTGGTAAAACACATGCTAAATGGTCTCCAGTTGCCCCTGTTTGGTATAGGATGCTTCCTGAGGTTATAATATCGCAAGATATTGAAGATGAGATGGCTGAGAAACTTGTGGCAACATGCCCGGTTAAAGTATTTGATATTGAAGATATTGGCAATGGTAAAAAAAGGGCTACTGTAGCCAGACCACGAGCTTGCACACTGTGCAGGGAGTGCATCAGAGAAGGGAAGGGTTGGGAGAATTCTATTGCTCTGCAGCGTAAGAAGGATCATTTCATTTTCAAAATTGAATCAACCGGTGTATTACCTCCTGAAGTGCTATTTACTGAAGCTGTGAAGATTTTGGAAGACAAGTGCGATCGTGTTATTTCTGATCTTTCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005666 GO:0005730 GO:0005736 GO:0030880 GO:0031974 GO:0031981 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:0044452 GO:0044464 GO:0055029 GO:0061695 GO:0070013 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_A_bac RNA_pol_L

Protein Analysis

395

Amino Acids

43.91

Weight (kDa)

4.88

Isoelectric Point (pI)

44.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_L	PF01193	100 - 386	4.5e-24	RNA polymerase Rpb3/Rpb11 dimerisation domain
RNA_pol_A_bac	PF01000	139 - 275	4.8e-11	RNA polymerase Rpb3/RpoA insert domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0007965)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G60620 AT1G60620
fragaria_vesca	FvH4_3g42690 FvH4_3g42690
malus_domestica	MD03G1029700.v1.1 MD11G1033100.v1.1 MD11G1033500.v1.1
prunus_persica	Prupe.6G025800_v2.0.a1 Prupe.6G025800_v2.0.a1 Prupe.6G025800_v2.0.a1 Prupe.6G025800_v2.0.a1 Prupe.6G025800_v2.0.a1
pyrus_communis	pycom03g02470 pycom11g02880
rosa_chinensis	RchiOBHm_Chr5g0076331
rosa_laevigata	RLG00000036618
rosa_multiflora	Rmu_sc0002400.1_g000006
rosa_roxburghii	Rroxscaffold_1G00005480
rosa_rugosa	Rorug05G0447400
rosa_samantha	Rh5AG502300 Rh5BG524100 Rh5CG547700 Rh5DG536200
rosa_wichuraiana	Rw5G046610

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	872
AatII	GACGTC	1 cut(s)	29
AccIII	TCCGGA	1 cut(s)	342
AciI	CCGC	1 cut(s)	115
AclWI	GGATC	2 cut(s)	314, 1077
AcsI	RAATTY	4 cut(s)	134, 482, 704, 1042
AcuI	CTGAAG	3 cut(s)	63, 1134, 1149
AcvI	CACGTG	1 cut(s)	149
AcyI	GRCGYC	1 cut(s)	26
AdeI	CACNNNGTG	1 cut(s)	1005
AfaI	GTAC	1 cut(s)	429
AfiI	CCNNNNNNNGG	3 cut(s)	734, 769, 846
AflIII	ACRYGT	2 cut(s)	146, 148
AgeI	ACCGGT	1 cut(s)	1097
AgsI	TTSAA	8 cut(s)	134, 269, 383, 482, 890, 947, 1084, 1091
AjnI	CCWGG	1 cut(s)	763
AluBI	AGCT	6 cut(s)	94, 246, 359, 532, 995, 1133
AluI	AGCT	6 cut(s)	94, 246, 359, 532, 995, 1133
Alw26I	GTCTC	3 cut(s)	452, 732, 834
AlwI	GGATC	2 cut(s)	314, 1077
AlwNI	CAGNNNCTG	1 cut(s)	41
Aor13HI	TCCGGA	1 cut(s)	342
AoxI	GGCC	3 cut(s)	63, 162, 760
ApeKI	GCWGC	3 cut(s)	118, 559, 1057
ApoI	RAATTY	4 cut(s)	134, 482, 704, 1042
AseI	ATTAAT	1 cut(s)	276
AsiGI	ACCGGT	1 cut(s)	1097
Asp700I	GAANNNNTTC	1 cut(s)	387
AspS9I	GGNCC	1 cut(s)	761
AsuC2I	CCSGG	1 cut(s)	926
AxyI	CCTNAGG	1 cut(s)	864
BauI	CACGAG	2 cut(s)	730, 990
BbrPI	CACGTG	1 cut(s)	149
BbsI	GAAGAC	1 cut(s)	1155
BbvCI	CCTCAGC	1 cut(s)	360
BbvI	GCAGC	3 cut(s)	105, 571, 1069
BccI	CCATC	3 cut(s)	289, 527, 892
BciT130I	CCWGG	1 cut(s)	765
BciVI	GTATCC	1 cut(s)	624
BcnI	CCSGG	1 cut(s)	926
BcoDI	GTCTC	3 cut(s)	452, 732, 834
BfaI	CTAG	3 cut(s)	471, 753, 758
BfmI	CTRYAG	2 cut(s)	978, 1055
BfuI	GTATCC	1 cut(s)	624
BglI	GCCNNNNNGGC	1 cut(s)	112
BisI	GCNGC	4 cut(s)	116, 119, 560, 1058
BlsI	GCNGC	4 cut(s)	117, 120, 561, 1059
BmcAI	AGTACT	1 cut(s)	429
Bme1390I	CCNGG	2 cut(s)	765, 926
BmgT120I	GGNCC	1 cut(s)	761
BmiI	GGNNCC	1 cut(s)	366
BmrFI	CCNGG	2 cut(s)	765, 926
BmsI	GCATC	5 cut(s)	56, 157, 221, 846, 1026
BoxI	GACNNNNGTC	1 cut(s)	149
BpiI	GAAGAC	1 cut(s)	1155
BplI	GAGNNNNNCTC	4 cut(s)	80, 112, 635, 667
BpmI	CTGGAG	1 cut(s)	816
Bpu10I	CCTNAGC	1 cut(s)	360
BpuMI	CCSGG	1 cut(s)	926
BsaAI	YACGTR	1 cut(s)	149
BsaHI	GRCGYC	1 cut(s)	26
BsaI	GGTCTC	2 cut(s)	452, 834
BsaJI	CCNNGG	1 cut(s)	763
BsaWI	WCCGGW	2 cut(s)	342, 1097
Bsc4I	CCNNNNNNNGG	3 cut(s)	734, 769, 846
Bse118I	RCCGGY	1 cut(s)	1097
Bse1I	ACTGG	1 cut(s)	833
Bse21I	CCTNAGG	1 cut(s)	864
Bse3DI	GCAATG	1 cut(s)	964
BseAI	TCCGGA	1 cut(s)	342
BseBI	CCWGG	1 cut(s)	765
BseDI	CCNNGG	1 cut(s)	763
BseGI	GGATG	3 cut(s)	295, 647, 861
BseLI	CCNNNNNNNGG	3 cut(s)	734, 769, 846
BseMI	GCAATG	1 cut(s)	964
BseMII	CTCAG	4 cut(s)	111, 351, 855, 894
BseNI	ACTGG	1 cut(s)	833
BseXI	GCAGC	3 cut(s)	105, 571, 1069
BsgI	GTGCAG	1 cut(s)	1027
Bsh1285I	CGRYCG	1 cut(s)	1162
BshFI	GGCC	3 cut(s)	65, 164, 762
BshTI	ACCGGT	1 cut(s)	1097
BsiEI	CGRYCG	1 cut(s)	1162
BsiSI	CCGG	3 cut(s)	343, 926, 1098
BslI	CCNNNNNNNGG	3 cut(s)	734, 769, 846
BsmAI	GTCTC	3 cut(s)	452, 732, 834
BsmI	GAATGC	1 cut(s)	338
BsnI	GGCC	3 cut(s)	65, 164, 762
Bso31I	GGTCTC	2 cut(s)	452, 834
Bsp13I	TCCGGA	1 cut(s)	342
Bsp143I	GATC	7 cut(s)	309, 319, 456, 778, 1069, 1159, 1174
BspACI	CCGC	1 cut(s)	115
BspANI	GGCC	3 cut(s)	65, 164, 762
BspCNI	CTCAG	4 cut(s)	110, 352, 856, 895
BspEI	TCCGGA	1 cut(s)	342
BspHI	TCATGA	1 cut(s)	1181
BspLI	GGNNCC	1 cut(s)	366
BspMAI	CTGCAG	1 cut(s)	1059
BspPI	GGATC	2 cut(s)	314, 1077
BspTNI	GGTCTC	2 cut(s)	452, 834
BsrDI	GCAATG	1 cut(s)	964
BsrFI	RCCGGY	1 cut(s)	1097
BsrI	ACTGG	1 cut(s)	833
BssAI	RCCGGY	1 cut(s)	1097
BssECI	CCNNGG	1 cut(s)	763
BssMI	GATC	7 cut(s)	309, 319, 456, 778, 1069, 1159, 1174
BssNI	GRCGYC	1 cut(s)	26
BssSI	CACGAG	2 cut(s)	730, 990
Bst2BI	CACGAG	2 cut(s)	730, 990
Bst2UI	CCWGG	1 cut(s)	765
Bst4CI	ACNGT	2 cut(s)	979, 1005
BstACI	GRCGYC	1 cut(s)	26
BstAPI	GCANNNNNTGC	2 cut(s)	1005, 1014
BstBAI	YACGTR	1 cut(s)	149
BstC8I	GCNNGC	1 cut(s)	997
BstDEI	CTNAG	4 cut(s)	97, 360, 864, 903
BstF5I	GGATG	3 cut(s)	295, 647, 861
BstKTI	GATC	7 cut(s)	312, 322, 459, 781, 1072, 1162, 1177
BstMAI	GTCTC	3 cut(s)	452, 732, 834
BstMBI	GATC	7 cut(s)	309, 319, 456, 778, 1069, 1159, 1174
BstMCI	CGRYCG	1 cut(s)	1162
BstMWI	GCNNNNNNNGC	4 cut(s)	112, 980, 1005, 1014
BstNI	CCWGG	1 cut(s)	765
BstNSI	RCATGY	3 cut(s)	794, 821, 924
BstPAI	GACNNNNGTC	1 cut(s)	149
BstSCI	CCNGG	2 cut(s)	763, 924
BstSFI	CTRYAG	2 cut(s)	978, 1055
BstV1I	GCAGC	3 cut(s)	105, 571, 1069
BstV2I	GAAGAC	1 cut(s)	1155
Bsu36I	CCTNAGG	1 cut(s)	864
BsuI	GTATCC	1 cut(s)	624
BsuRI	GGCC	3 cut(s)	65, 164, 762
BtsCI	GGATG	3 cut(s)	295, 647, 861
BtsIMutI	CAGTG	1 cut(s)	1001
Cac8I	GCNNGC	1 cut(s)	997
CaiI	CAGNNNCTG	1 cut(s)	41
CciI	TCATGA	1 cut(s)	1181
Cfr10I	RCCGGY	1 cut(s)	1097
Cfr13I	GGNCC	1 cut(s)	761
Csp6I	GTAC	1 cut(s)	428
CspAI	ACCGGT	1 cut(s)	1097
CviAII	CATG	5 cut(s)	536, 791, 818, 921, 1182
CviQI	GTAC	1 cut(s)	428
DdeI	CTNAG	4 cut(s)	97, 360, 864, 903
DpnI	GATC	7 cut(s)	311, 321, 458, 780, 1071, 1161, 1176
DpnII	GATC	7 cut(s)	309, 319, 456, 778, 1069, 1159, 1174
DraI	TTTAAA	1 cut(s)	262
DraIII	CACNNNGTG	1 cut(s)	1005
Eco31I	GGTCTC	2 cut(s)	452, 834
Eco57I	CTGAAG	3 cut(s)	63, 1134, 1149
Eco72I	CACGTG	1 cut(s)	149
Eco81I	CCTNAGG	1 cut(s)	864
EcoO109I	RGGNCCY	1 cut(s)	761
EcoRI	GAATTC	2 cut(s)	134, 1042
EcoRII	CCWGG	1 cut(s)	763
EcoT22I	ATGCAT	2 cut(s)	214, 340
FaeI	CATG	5 cut(s)	539, 794, 821, 924, 1185
FatI	CATG	5 cut(s)	535, 790, 817, 920, 1181
Fnu4HI	GCNGC	4 cut(s)	116, 119, 560, 1058
FokI	GGATG	3 cut(s)	302, 634, 868
Fsp4HI	GCNGC	4 cut(s)	116, 119, 560, 1058
FspBI	CTAG	3 cut(s)	471, 753, 758
GluI	GCNGC	4 cut(s)	116, 119, 560, 1058
GsuI	CTGGAG	1 cut(s)	816
HaeIII	GGCC	3 cut(s)	65, 164, 762
HapII	CCGG	3 cut(s)	343, 926, 1098
Hin1I	GRCGYC	1 cut(s)	26
Hin1II	CATG	5 cut(s)	539, 794, 821, 924, 1185
HincII	GTYRAC	1 cut(s)	466
HindII	GTYRAC	1 cut(s)	466
HinfI	GANTC	8 cut(s)	38, 53, 222, 348, 623, 644, 692, 1091
HpaII	CCGG	3 cut(s)	343, 926, 1098
Hpy166II	GTNNAC	2 cut(s)	466, 548
Hpy188III	TCNNGA	8 cut(s)	139, 343, 689, 770, 782, 863, 1112, 1182
Hpy8I	GTNNAC	2 cut(s)	466, 548
Hpy99I	CGWCG	2 cut(s)	28, 31
HpyAV	CCTTC	4 cut(s)	55, 1019, 1024, 1060
HpyCH4III	ACNGT	2 cut(s)	979, 1005
HpyCH4IV	ACGT	3 cut(s)	26, 148, 234
HpyCH4V	TGCA	9 cut(s)	159, 212, 338, 398, 684, 999, 1008, 1017, 1057
HpyF10VI	GCNNNNNNNGC	4 cut(s)	112, 980, 1005, 1014
HpyF3I	CTNAG	4 cut(s)	97, 360, 864, 903
HpySE526I	ACGT	3 cut(s)	26, 148, 234
Hsp92I	GRCGYC	1 cut(s)	26
Hsp92II	CATG	5 cut(s)	539, 794, 821, 924, 1185
Kpn2I	TCCGGA	1 cut(s)	342
Kzo9I	GATC	7 cut(s)	309, 319, 456, 778, 1069, 1159, 1174
LmnI	GCTCC	2 cut(s)	175, 537
Lsp1109I	GCAGC	3 cut(s)	105, 571, 1069
LweI	GCATC	5 cut(s)	56, 157, 221, 846, 1026
MaeI	CTAG	3 cut(s)	471, 753, 758
MaeII	ACGT	3 cut(s)	26, 148, 234
MaeIII	GTNAC	1 cut(s)	251
MalI	GATC	7 cut(s)	311, 321, 458, 780, 1071, 1161, 1176
MboI	GATC	7 cut(s)	309, 319, 456, 778, 1069, 1159, 1174
MboII	GAAGA	5 cut(s)	29, 902, 959, 1150, 1160
MfeI	CAATTG	1 cut(s)	747
MluCI	AATT	9 cut(s)	134, 482, 584, 704, 720, 747, 774, 1042, 1086
MlyI	GAGTC	4 cut(s)	47, 47, 231, 653
MmeI	TCCRAC	1 cut(s)	735
MnlI	CCTC	7 cut(s)	135, 280, 355, 545, 661, 859, 1119
Mph1103I	ATGCAT	2 cut(s)	214, 340
MroI	TCCGGA	1 cut(s)	342
MroXI	GAANNNNTTC	1 cut(s)	387
MseI	TTAA	5 cut(s)	261, 276, 528, 798, 930
MspI	CCGG	3 cut(s)	343, 926, 1098
MspR9I	CCNGG	2 cut(s)	765, 926
MunI	CAATTG	1 cut(s)	747
Mva1269I	GAATGC	1 cut(s)	338
MvaI	CCWGG	1 cut(s)	765
MwoI	GCNNNNNNNGC	4 cut(s)	112, 980, 1005, 1014
NciI	CCSGG	1 cut(s)	926
NdeII	GATC	7 cut(s)	309, 319, 456, 778, 1069, 1159, 1174
NlaIII	CATG	5 cut(s)	539, 794, 821, 924, 1185
NlaIV	GGNNCC	1 cut(s)	366
NmuCI	GTSAC	1 cut(s)	251
NsiI	ATGCAT	2 cut(s)	214, 340
NspI	RCATGY	3 cut(s)	794, 821, 924
PagI	TCATGA	1 cut(s)	1181
PcsI	WCGNNNNNNNCGW	3 cut(s)	56, 231, 547
PctI	GAATGC	1 cut(s)	338
PdmI	GAANNNNTTC	1 cut(s)	387
PfeI	GAWTC	4 cut(s)	348, 623, 692, 1091
PinAI	ACCGGT	1 cut(s)	1097
PkrI	GCNGC	4 cut(s)	117, 120, 561, 1059
Ple19I	CGATCG	1 cut(s)	1162
PleI	GAGTC	4 cut(s)	46, 47, 230, 652
PmaCI	CACGTG	1 cut(s)	149
PmlI	CACGTG	1 cut(s)	149
PpsI	GAGTC	4 cut(s)	46, 47, 230, 652
Ppu21I	YACGTR	1 cut(s)	149
PshAI	GACNNNNGTC	1 cut(s)	149
PshBI	ATTAAT	1 cut(s)	276
PsiI	TTATAA	1 cut(s)	872
Psp6I	CCWGG	1 cut(s)	763
PspCI	CACGTG	1 cut(s)	149
PspGI	CCWGG	1 cut(s)	763
PspN4I	GGNNCC	1 cut(s)	366
PspPI	GGNCC	1 cut(s)	761
PstI	CTGCAG	1 cut(s)	1059
PstNI	CAGNNNCTG	1 cut(s)	41
PvuI	CGATCG	1 cut(s)	1162
RsaI	GTAC	1 cut(s)	429
RsaNI	GTAC	1 cut(s)	428
SaqAI	TTAA	5 cut(s)	261, 276, 528, 798, 930
SatI	GCNGC	4 cut(s)	116, 119, 560, 1058
Sau3AI	GATC	7 cut(s)	309, 319, 456, 778, 1069, 1159, 1174
Sau96I	GGNCC	1 cut(s)	761
ScaI	AGTACT	1 cut(s)	429
SchI	GAGTC	4 cut(s)	47, 47, 231, 653
ScrFI	CCNGG	2 cut(s)	765, 926
SfaNI	GCATC	5 cut(s)	56, 157, 221, 846, 1026
SfcI	CTRYAG	2 cut(s)	978, 1055
Sse9I	AATT	9 cut(s)	134, 482, 584, 704, 720, 747, 774, 1042, 1086
SsiI	CCGC	1 cut(s)	115
SspMI	CTAG	3 cut(s)	471, 753, 758
StyD4I	CCNGG	2 cut(s)	763, 924
TaaI	ACNGT	2 cut(s)	979, 1005
TaiI	ACGT	3 cut(s)	29, 151, 237
TaqI	TCGA	2 cut(s)	153, 225
TasI	AATT	9 cut(s)	134, 482, 584, 704, 720, 747, 774, 1042, 1086
TatI	WGTACW	1 cut(s)	427
TauI	GCSGC	1 cut(s)	118
TfiI	GAWTC	4 cut(s)	348, 623, 692, 1091
Tru1I	TTAA	5 cut(s)	261, 276, 528, 798, 930
Tru9I	TTAA	5 cut(s)	261, 276, 528, 798, 930
TscAI	CASTG	1 cut(s)	1008
TseFI	GTSAC	1 cut(s)	251
TseI	GCWGC	3 cut(s)	118, 559, 1057
Tsp45I	GTSAC	1 cut(s)	251
TspDTI	ATGAA	6 cut(s)	73, 167, 438, 522, 1066, 1170
TspGWI	ACGGA	1 cut(s)	299
TspRI	CASTG	1 cut(s)	1008
VspI	ATTAAT	1 cut(s)	276
XapI	RAATTY	4 cut(s)	134, 482, 704, 1042
XceI	RCATGY	3 cut(s)	794, 821, 924
XcmI	CCANNNNNNNNNTGG	1 cut(s)	73
XmnI	GAANNNNTTC	1 cut(s)	387
XspI	CTAG	3 cut(s)	471, 753, 758
ZraI	GACGTC	1 cut(s)	27
ZrmI	AGTACT	1 cut(s)	429
Zsp2I	ATGCAT	2 cut(s)	214, 340

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