Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr11

Orthogroup ID

OG0007965

Physical Location & Seq

Genomic Coordinates Reverse (-)

2863520 .. 2866636

Gene Structure 3117 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD11G1033100.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1020 bp

ATGCCCCCAAATATCGAATTCCAGAGGACGCATGTCGAGTGCAAGGCTGATGCTCCCATTCATGTAACAACTGATACTTTTCGGTATAATGGTGCTTATGCATCAATGGGAGTCGATAATAACTTATTGGATAGCTTCTGTGACAACTTTAAAGTTGAAGTTATTAATCTTACGGAGGATGAGATGGAGTTTGATATGATCAGCATTGATCCAGCACTTGCCAATGCATTCCGGAGAATCCTCATAGCTGAGGTTCCCACAATGGCTATTGAAAAAGTTCTTATTGCAGACAATACATCAGTGATCCAAGATGAAGTACTTGCCCACAGGTTGGGTCTCATTCCGATAAAGGTTGACCCCAGATTATTTGAATTTACAGGAAATAATACATCAAATGAGAAGAACACCATTGTTTTTAAGCTCCATGTACAATGTAAACGAGGGGGGACAGCGTACTTCAGGTATGTAAAGTCAAAAGAATTGATTTGGTTGCCAAATGGGAGTGAGTTTCCCTTGGAATCACAAGATACCAACCCAGAGTCATCCTCAAAACAAAAAACATATACATCGTTTACTTGCAGTCAGGATTCCTTGCCAGAATTTTCCGACAATCCAATTGACCCCACGAGTGGAGATATTATAATTGCTAGACTAGGCCCTGGTCAGGTAATTGAACTGGAAGCACATGCGGTTAAGGGCATTGGTAAAACACATGCAAAATGGTCTCCAGTTGCCCCTGTTTGGTATAGGATGCTTCCTGAGGTTAAAGTATTCGATATTGAAGATATTGGCAACGGCAAGAAAAGGGCAACTGTAGCCAGGCCACGAGCTTGCACACTGTGCAGGGAGTGCATCGGAGAAGGGAAGGGTTGGGAGAATTCTATATCTCTGCAGCGTAACAAGGATCATTTCATTTTTAAAATTGAATCGACTGGGGTATTGCCTCCCGAAGTCTTATTTACTGAAGCTGTGAAGATTCTGGAAGACAAGTGTGATCGTGTTATTTCTGATCTTTCTTAA

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

340

Amino Acids

38.0

Weight (kDa)

5.24

Isoelectric Point (pI)

41.13

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_L	PF01193	63 - 331	3.5e-23	RNA polymerase Rpb3/Rpb11 dimerisation domain
RNA_pol_A_bac	PF01000	104 - 240	7e-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

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Align Labels (Cladogram)

Image

Tree File

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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: 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)	641
AccB7I	CCANNNNNTGG	1 cut(s)	331
AccIII	TCCGGA	1 cut(s)	231
AciI	CCGC	1 cut(s)	689
AclWI	GGATC	3 cut(s)	203, 298, 912
AcsI	RAATTY	4 cut(s)	17, 371, 599, 877
AcuI	CTGAAG	2 cut(s)	442, 984
AdeI	CACNNNGTG	1 cut(s)	840
AfaI	GTAC	3 cut(s)	318, 429, 455
AfiI	CCNNNNNNNGG	4 cut(s)	331, 629, 664, 741
AgsI	TTSAA	6 cut(s)	158, 272, 371, 674, 782, 926
AjnI	CCWGG	2 cut(s)	658, 818
AluBI	AGCT	5 cut(s)	135, 248, 421, 830, 968
AluI	AGCT	5 cut(s)	135, 248, 421, 830, 968
Alw26I	GTCTC	2 cut(s)	341, 729
AlwI	GGATC	3 cut(s)	203, 298, 912
Aor13HI	TCCGGA	1 cut(s)	231
AoxI	GGCC	2 cut(s)	655, 821
ApeKI	GCWGC	1 cut(s)	892
ApoI	RAATTY	4 cut(s)	17, 371, 599, 877
AseI	ATTAAT	1 cut(s)	165
Asp700I	GAANNNNTTC	1 cut(s)	276
AspS9I	GGNCC	1 cut(s)	656
AxyI	CCTNAGG	1 cut(s)	759
BauI	CACGAG	2 cut(s)	625, 825
BbsI	GAAGAC	1 cut(s)	990
BbvCI	CCTCAGC	1 cut(s)	249
BbvI	GCAGC	1 cut(s)	904
BccI	CCATC	1 cut(s)	178
BceAI	ACGGC	1 cut(s)	811
BciT130I	CCWGG	2 cut(s)	660, 820
BclI	TGATCA	1 cut(s)	198
BcoDI	GTCTC	2 cut(s)	341, 729
BfaI	CTAG	2 cut(s)	648, 653
BfmI	CTRYAG	2 cut(s)	813, 890
BisI	GCNGC	1 cut(s)	893
BlsI	GCNGC	1 cut(s)	894
BmcAI	AGTACT	1 cut(s)	318
Bme1390I	CCNGG	2 cut(s)	660, 820
BmgT120I	GGNCC	1 cut(s)	656
BmiI	GGNNCC	1 cut(s)	255
BmrFI	CCNGG	2 cut(s)	660, 820
BmrI	ACTGGG	1 cut(s)	942
BmsI	GCATC	4 cut(s)	40, 110, 741, 861
BmuI	ACTGGG	1 cut(s)	942
BoxI	GACNNNNGTC	1 cut(s)	32
BpiI	GAAGAC	1 cut(s)	990
BplI	GAGNNNNNCTC	2 cut(s)	530, 562
BpmI	CTGGAG	1 cut(s)	711
Bpu10I	CCTNAGC	1 cut(s)	249
BsaI	GGTCTC	2 cut(s)	341, 729
BsaJI	CCNNGG	2 cut(s)	513, 658
BsaWI	WCCGGW	1 cut(s)	231
Bsc4I	CCNNNNNNNGG	4 cut(s)	331, 629, 664, 741
Bse1I	ACTGG	3 cut(s)	681, 728, 937
Bse21I	CCTNAGG	1 cut(s)	759
BseAI	TCCGGA	1 cut(s)	231
BseBI	CCWGG	2 cut(s)	660, 820
BseDI	CCNNGG	2 cut(s)	513, 658
BseGI	GGATG	3 cut(s)	184, 542, 756
BseLI	CCNNNNNNNGG	4 cut(s)	331, 629, 664, 741
BseMII	CTCAG	2 cut(s)	240, 750
BseNI	ACTGG	3 cut(s)	681, 728, 937
BseXI	GCAGC	1 cut(s)	904
BsgI	GTGCAG	1 cut(s)	862
BshFI	GGCC	2 cut(s)	657, 823
BsiSI	CCGG	1 cut(s)	232
BslFI	GGGAC	1 cut(s)	460
BslI	CCNNNNNNNGG	4 cut(s)	331, 629, 664, 741
BsmAI	GTCTC	2 cut(s)	341, 729
BsmFI	GGGAC	1 cut(s)	460
BsmI	GAATGC	1 cut(s)	227
BsnI	GGCC	2 cut(s)	657, 823
Bso31I	GGTCTC	2 cut(s)	341, 729
Bsp13I	TCCGGA	1 cut(s)	231
Bsp1407I	TGTACA	1 cut(s)	427
Bsp143I	GATC	6 cut(s)	198, 208, 303, 904, 994, 1009
BspACI	CCGC	1 cut(s)	689
BspANI	GGCC	2 cut(s)	657, 823
BspCNI	CTCAG	2 cut(s)	241, 751
BspEI	TCCGGA	1 cut(s)	231
BspLI	GGNNCC	1 cut(s)	255
BspMAI	CTGCAG	1 cut(s)	894
BspPI	GGATC	3 cut(s)	203, 298, 912
BspTNI	GGTCTC	2 cut(s)	341, 729
BsrGI	TGTACA	1 cut(s)	427
BsrI	ACTGG	3 cut(s)	681, 728, 937
BssECI	CCNNGG	2 cut(s)	513, 658
BssMI	GATC	6 cut(s)	198, 208, 303, 904, 994, 1009
BssSI	CACGAG	2 cut(s)	625, 825
BssT1I	CCWWGG	1 cut(s)	513
Bst2BI	CACGAG	2 cut(s)	625, 825
Bst2UI	CCWGG	2 cut(s)	660, 820
Bst4CI	ACNGT	2 cut(s)	814, 840
BstAPI	GCANNNNNTGC	2 cut(s)	840, 849
BstAUI	TGTACA	1 cut(s)	427
BstC8I	GCNNGC	1 cut(s)	832
BstDEI	CTNAG	2 cut(s)	249, 759
BstF5I	GGATG	3 cut(s)	184, 542, 756
BstKTI	GATC	6 cut(s)	201, 211, 306, 907, 997, 1012
BstMAI	GTCTC	2 cut(s)	341, 729
BstMBI	GATC	6 cut(s)	198, 208, 303, 904, 994, 1009
BstMWI	GCNNNNNNNGC	3 cut(s)	815, 840, 849
BstNI	CCWGG	2 cut(s)	660, 820
BstNSI	RCATGY	3 cut(s)	35, 689, 716
BstPAI	GACNNNNGTC	1 cut(s)	32
BstSCI	CCNGG	2 cut(s)	658, 818
BstSFI	CTRYAG	2 cut(s)	813, 890
BstV1I	GCAGC	1 cut(s)	904
BstV2I	GAAGAC	1 cut(s)	990
Bsu36I	CCTNAGG	1 cut(s)	759
BsuRI	GGCC	2 cut(s)	657, 823
BtsCI	GGATG	3 cut(s)	184, 542, 756
BtsIMutI	CAGTG	2 cut(s)	306, 836
Cac8I	GCNNGC	1 cut(s)	832
Cfr13I	GGNCC	1 cut(s)	656
CseI	GACGC	1 cut(s)	37
Csp6I	GTAC	3 cut(s)	317, 428, 454
CviAII	CATG	5 cut(s)	32, 62, 425, 686, 713
CviQI	GTAC	3 cut(s)	317, 428, 454
DdeI	CTNAG	2 cut(s)	249, 759
DpnI	GATC	6 cut(s)	200, 210, 305, 906, 996, 1011
DpnII	GATC	6 cut(s)	198, 208, 303, 904, 994, 1009
DraI	TTTAAA	2 cut(s)	151, 919
DraIII	CACNNNGTG	1 cut(s)	840
Eco130I	CCWWGG	1 cut(s)	513
Eco31I	GGTCTC	2 cut(s)	341, 729
Eco57I	CTGAAG	2 cut(s)	442, 984
Eco81I	CCTNAGG	1 cut(s)	759
EcoO109I	RGGNCCY	1 cut(s)	656
EcoRI	GAATTC	2 cut(s)	17, 877
EcoRII	CCWGG	2 cut(s)	658, 818
EcoT14I	CCWWGG	1 cut(s)	513
EcoT22I	ATGCAT	2 cut(s)	103, 229
ErhI	CCWWGG	1 cut(s)	513
FaeI	CATG	5 cut(s)	35, 65, 428, 689, 716
FaqI	GGGAC	1 cut(s)	460
FatI	CATG	5 cut(s)	31, 61, 424, 685, 712
FbaI	TGATCA	1 cut(s)	198
Fnu4HI	GCNGC	1 cut(s)	893
FokI	GGATG	3 cut(s)	191, 529, 763
Fsp4HI	GCNGC	1 cut(s)	893
FspBI	CTAG	2 cut(s)	648, 653
GluI	GCNGC	1 cut(s)	893
GsuI	CTGGAG	1 cut(s)	711
HaeIII	GGCC	2 cut(s)	657, 823
HapII	CCGG	1 cut(s)	232
HgaI	GACGC	1 cut(s)	37
Hin1II	CATG	5 cut(s)	35, 65, 428, 689, 716
HincII	GTYRAC	1 cut(s)	355
HindII	GTYRAC	1 cut(s)	355
HinfI	GANTC	7 cut(s)	111, 237, 518, 539, 587, 926, 976
HpaII	CCGG	1 cut(s)	232
Hpy166II	GTNNAC	3 cut(s)	355, 437, 573
Hpy188I	TCNGA	4 cut(s)	345, 607, 857, 1009
Hpy188III	TCNNGA	6 cut(s)	22, 232, 584, 758, 947, 980
Hpy8I	GTNNAC	3 cut(s)	355, 437, 573
HpyAV	CCTTC	2 cut(s)	854, 859
HpyCH4III	ACNGT	2 cut(s)	814, 840
HpyF10VI	GCNNNNNNNGC	3 cut(s)	815, 840, 849
HpyF3I	CTNAG	2 cut(s)	249, 759
Hsp92II	CATG	5 cut(s)	35, 65, 428, 689, 716
Kpn2I	TCCGGA	1 cut(s)	231
Ksp22I	TGATCA	1 cut(s)	198
Kzo9I	GATC	6 cut(s)	198, 208, 303, 904, 994, 1009
LmnI	GCTCC	2 cut(s)	58, 426
Lsp1109I	GCAGC	1 cut(s)	904
LweI	GCATC	4 cut(s)	40, 110, 741, 861
MaeI	CTAG	2 cut(s)	648, 653
MaeIII	GTNAC	3 cut(s)	64, 140, 896
MalI	GATC	6 cut(s)	200, 210, 305, 906, 996, 1011
MboI	GATC	6 cut(s)	198, 208, 303, 904, 994, 1009
MboII	GAAGA	4 cut(s)	412, 794, 985, 995
MfeI	CAATTG	1 cut(s)	615
MluCI	AATT	9 cut(s)	17, 371, 479, 599, 615, 642, 669, 877, 921
MlyI	GAGTC	2 cut(s)	120, 548
MmeI	TCCRAC	1 cut(s)	630
MnlI	CCTC	8 cut(s)	18, 169, 244, 251, 434, 556, 754, 954
Mph1103I	ATGCAT	2 cut(s)	103, 229
MroI	TCCGGA	1 cut(s)	231
MroXI	GAANNNNTTC	1 cut(s)	276
MseI	TTAA	7 cut(s)	150, 165, 417, 693, 765, 918, 1018
MspI	CCGG	1 cut(s)	232
MspR9I	CCNGG	2 cut(s)	660, 820
MunI	CAATTG	1 cut(s)	615
Mva1269I	GAATGC	1 cut(s)	227
MvaI	CCWGG	2 cut(s)	660, 820
MwoI	GCNNNNNNNGC	3 cut(s)	815, 840, 849
NdeII	GATC	6 cut(s)	198, 208, 303, 904, 994, 1009
NlaIII	CATG	5 cut(s)	35, 65, 428, 689, 716
NlaIV	GGNNCC	1 cut(s)	255
NmuCI	GTSAC	1 cut(s)	140
NsiI	ATGCAT	2 cut(s)	103, 229
NspI	RCATGY	3 cut(s)	35, 689, 716
PctI	GAATGC	1 cut(s)	227
PdmI	GAANNNNTTC	1 cut(s)	276
PfeI	GAWTC	5 cut(s)	237, 518, 587, 926, 976
PflMI	CCANNNNNTGG	1 cut(s)	331
PkrI	GCNGC	1 cut(s)	894
PleI	GAGTC	2 cut(s)	119, 547
PpsI	GAGTC	2 cut(s)	119, 547
PshAI	GACNNNNGTC	1 cut(s)	32
PshBI	ATTAAT	1 cut(s)	165
PsiI	TTATAA	1 cut(s)	641
Psp6I	CCWGG	2 cut(s)	658, 818
PspGI	CCWGG	2 cut(s)	658, 818
PspN4I	GGNNCC	1 cut(s)	255
PspPI	GGNCC	1 cut(s)	656
PstI	CTGCAG	1 cut(s)	894
RsaI	GTAC	3 cut(s)	318, 429, 455
RsaNI	GTAC	3 cut(s)	317, 428, 454
SaqAI	TTAA	7 cut(s)	150, 165, 417, 693, 765, 918, 1018
SatI	GCNGC	1 cut(s)	893
Sau3AI	GATC	6 cut(s)	198, 208, 303, 904, 994, 1009
Sau96I	GGNCC	1 cut(s)	656
ScaI	AGTACT	1 cut(s)	318
SchI	GAGTC	2 cut(s)	120, 548
ScrFI	CCNGG	2 cut(s)	660, 820
SfaNI	GCATC	4 cut(s)	40, 110, 741, 861
SfcI	CTRYAG	2 cut(s)	813, 890
Sse9I	AATT	9 cut(s)	17, 371, 479, 599, 615, 642, 669, 877, 921
SsiI	CCGC	1 cut(s)	689
SspMI	CTAG	2 cut(s)	648, 653
StyD4I	CCNGG	2 cut(s)	658, 818
StyI	CCWWGG	1 cut(s)	513
TaaI	ACNGT	2 cut(s)	814, 840
TaqI	TCGA	5 cut(s)	15, 36, 114, 774, 929
TasI	AATT	9 cut(s)	17, 371, 479, 599, 615, 642, 669, 877, 921
TatI	WGTACW	2 cut(s)	316, 427
TfiI	GAWTC	5 cut(s)	237, 518, 587, 926, 976
Tru1I	TTAA	7 cut(s)	150, 165, 417, 693, 765, 918, 1018
Tru9I	TTAA	7 cut(s)	150, 165, 417, 693, 765, 918, 1018
TscAI	CASTG	2 cut(s)	306, 843
TseFI	GTSAC	1 cut(s)	140
TseI	GCWGC	1 cut(s)	892
Tsp45I	GTSAC	1 cut(s)	140
TspDTI	ATGAA	3 cut(s)	50, 327, 901
TspGWI	ACGGA	1 cut(s)	188
TspRI	CASTG	2 cut(s)	306, 843
Van91I	CCANNNNNTGG	1 cut(s)	331
VspI	ATTAAT	1 cut(s)	165
XapI	RAATTY	4 cut(s)	17, 371, 599, 877
XceI	RCATGY	3 cut(s)	35, 689, 716
XmnI	GAANNNNTTC	1 cut(s)	276
XspI	CTAG	2 cut(s)	648, 653
ZrmI	AGTACT	1 cut(s)	318
Zsp2I	ATGCAT	2 cut(s)	103, 229

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