Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr07

Orthogroup ID

OG0003037

Physical Location & Seq

Genomic Coordinates Forward (+)

31959376 .. 31962226

Gene Structure 2851 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD07G1251400.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 990 bp

ATGGATAACGACGATCCCTCCGCCCGTCGCAGAAAGCGTAGGTTCATTCCCAAAGCCCAACCTCGCAAGAACCGCGAACCAACTGTTCCCACTCCCGACGCCGACGCCGACGACGATGACGGTCAAGAAACTCGTCGGGCCCAGACTCTGCTAAGTGAGTACAAAGAGAGAAGACGGGGGGCTAAACTCGAAAAGAAATCTTCAGTGCAAGTTGCATTTGGTCCCGGAGGAGCGGATGCATCCTCAACTTCTATCAGAACATTCGGAGCTGTAAAGGATGCCGATAGTGGCAAAAGCGGCAGCTTAGTTCTCAAAGGCTCTGATGAGGAGCAAAGTCTCCCAACTTTTCCTTCAGCCTCTAAGGAAGCTGAAACGGATGTAACTATGGAAGATGCTATTGATGCAGAACCACTTCAGATTGTCAAGAAAAATGATAGAGAATGTTGGGATTATGAGAATACATACTATCCTACTACTCTCCCTCTCAGGCAACCCAACTCTGGAGACCCAGAAATCCTTAATGCTAACGAATTTGGGGAGGATGCTGAAAAAGAGTATGATGAGAGCACGATAAATCCTGCTTCAAAACTCGGGCTGCTGGAGGAAAAAGTGAAAGCGAAGTTGTTATTCGTTCAACTTCCTTCCATTTTGCCATTGACGTCAAAGCCATCAGCTACTGCAAAGGGCAAAGAGAAAGTTGGAAGCTCAAAATCACTGGAGAGCTCAGGTGCTCCAAAGAAGGAAGGTAGTTTGGAAGAGTTGCCAGCCGGATTTATGGGTAAAATGCTGGTTTACAAGAGCGGAGCAATCAAGCTGAGGCTAGGAGATACCCTCTATGATGTTTCACCTGGTTCAGATAGCATGTCTGCTCAAGATGTTGTGGTAGCCAACACTGCAGAGAAGAAATGCATCGTTCTTGGAGAGCTGCGCCAGCGAGCTGTTGTAACTCCTGATGTGGATTCCCTCCTAAATGTGATTAGCATCGATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0001817 GO:0001819 GO:0002682 GO:0002684 GO:0003674 GO:0003682 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005666 GO:0005737 GO:0005829 GO:0008150 GO:0016604 GO:0016607 GO:0030880 GO:0031347 GO:0031349 GO:0031974 GO:0031981 GO:0032479 GO:0032481 GO:0032648 GO:0032728 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0045088 GO:0045089 GO:0048518 GO:0048583 GO:0048584 GO:0050776 GO:0050778 GO:0050789 GO:0051239 GO:0051240 GO:0055029 GO:0061695 GO:0065007 GO:0070013 GO:0080134 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_Rpc4

Protein Analysis

330

Amino Acids

35.74

Weight (kDa)

5.08

Isoelectric Point (pI)

48.88

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpc4	PF05132	206 - 319	9.8e-25	RNA polymerase III RPC4

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: OG0003037)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G09380 AT5G09380 AT5G09380
fragaria_vesca	FvH4_1g08400 FvH4_1g08400 FvH4_7g27240 FvH4_7g27240
malus_domestica	MD01G1181300.v1.1 MD02G1088300.v1.1 MD07G1251400.v1.1
prunus_persica	Prupe.2G275200_v2.0.a1 Prupe.7G201300_v2.0.a1
pyrus_communis	pycom02g07090 pycom07g22410
rosa_chinensis	RchiOBHm_Chr1g0374021 RchiOBHm_Chr2g0094511 RchiOBHm_Chr3g0487921
rosa_laevigata	RLG00000016497 RLG00000026785
rosa_multiflora	Rmu_sc0004359.1_g000044 Rmu_sc0006924.1_g000006 Rmu_sc0009793.1_g000002
rosa_roxburghii	Rroxscaffold_2G00147110 Rroxscaffold_4G00283820
rosa_rugosa	Rorug01G0380300 Rorug02G0044300.1
rosa_samantha	Rh1AG390800 Rh1BG354900 Rh1CG368000 Rh1DG385600 Rh2AG092600 Rh2BG092800 Rh2CG095300 Rh2DG091700 Rh3AG285100 Rh6AG149200
rosa_wichuraiana	Rw1G034440 Rw6G012910

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	662
AccBSI	CCGCTC	2 cut(s)	233, 801
AccII	CGCG	1 cut(s)	75
AciI	CCGC	5 cut(s)	21, 73, 233, 297, 801
AclWI	GGATC	1 cut(s)	8
AcsI	RAATTY	1 cut(s)	530
AcuI	CTGAAG	3 cut(s)	186, 336, 398
AcyI	GRCGYC	3 cut(s)	99, 105, 659
AfaI	GTAC	1 cut(s)	161
AfiI	CCNNNNNNNGG	1 cut(s)	500
AgsI	TTSAA	2 cut(s)	585, 635
AjnI	CCWGG	1 cut(s)	847
AjuI	GAANNNNNNNTTGG	2 cut(s)	334, 366
AluBI	AGCT	9 cut(s)	269, 303, 368, 674, 705, 723, 814, 925, 938
AluI	AGCT	9 cut(s)	269, 303, 368, 674, 705, 723, 814, 925, 938
Alw21I	GWGCWC	3 cut(s)	569, 725, 733
Alw26I	GTCTC	2 cut(s)	341, 498
AlwI	GGATC	1 cut(s)	8
AlwNI	CAGNNNCTG	2 cut(s)	148, 677
Ama87I	CYCGRG	1 cut(s)	590
AoxI	GGCC	1 cut(s)	138
ApaI	GGGCCC	1 cut(s)	142
ApeKI	GCWGC	3 cut(s)	300, 595, 925
ApoI	RAATTY	1 cut(s)	530
Asp700I	GAANNNNTTC	1 cut(s)	411
AspLEI	GCGC	1 cut(s)	930
AspS9I	GGNCC	3 cut(s)	138, 139, 221
AsuC2I	CCSGG	1 cut(s)	225
AsuHPI	GGTGA	1 cut(s)	837
AvaI	CYCGRG	1 cut(s)	590
AvaII	GGWCC	1 cut(s)	221
BaeGI	GKGCMC	1 cut(s)	142
BanII	GRGCYC	2 cut(s)	142, 725
BbsI	GAAGAC	1 cut(s)	178
Bbv12I	GWGCWC	3 cut(s)	569, 725, 733
BbvCI	CCTCAGC	1 cut(s)	815
BbvI	GCAGC	3 cut(s)	312, 582, 912
BccI	CCATC	1 cut(s)	676
BciT130I	CCWGG	1 cut(s)	849
BcnI	CCSGG	1 cut(s)	225
BcoDI	GTCTC	2 cut(s)	341, 498
BfaI	CTAG	1 cut(s)	821
BfmI	CTRYAG	1 cut(s)	894
BisI	GCNGC	4 cut(s)	298, 301, 596, 926
BlsI	GCNGC	4 cut(s)	299, 302, 597, 927
Bme1390I	CCNGG	2 cut(s)	225, 849
Bme18I	GGWCC	1 cut(s)	221
BmeT110I	CYCGRG	1 cut(s)	590
BmgT120I	GGNCC	3 cut(s)	138, 139, 221
BmiI	GGNNCC	2 cut(s)	140, 223
BmrFI	CCNGG	2 cut(s)	225, 849
BmsI	GCATC	7 cut(s)	226, 248, 268, 382, 391, 532, 918
BpiI	GAAGAC	1 cut(s)	178
BplI	GAGNNNNNCTC	2 cut(s)	816, 848
BpmI	CTGGAG	3 cut(s)	522, 620, 737
Bpu10I	CCTNAGC	2 cut(s)	724, 815
BpuEI	CTTGAG	1 cut(s)	855
BpuMI	CCSGG	1 cut(s)	225
Bsa29I	ATCGAT	1 cut(s)	984
BsaBI	GATNNNNATC	1 cut(s)	980
BsaHI	GRCGYC	3 cut(s)	99, 105, 659
BsaI	GGTCTC	1 cut(s)	498
BsaXI	ACNNNNNCTCC	1 cut(s)	32
Bsc4I	CCNNNNNNNGG	1 cut(s)	500
Bse1I	ACTGG	1 cut(s)	720
Bse8I	GATNNNNATC	1 cut(s)	980
BseBI	CCWGG	1 cut(s)	849
BseCI	ATCGAT	1 cut(s)	984
BseGI	GGATG	5 cut(s)	239, 241, 283, 382, 547
BseJI	GATNNNNATC	1 cut(s)	980
BseLI	CCNNNNNNNGG	1 cut(s)	500
BseMII	CTCAG	3 cut(s)	499, 738, 806
BseNI	ACTGG	1 cut(s)	720
BseRI	GAGGAG	2 cut(s)	243, 341
BseSI	GKGCMC	1 cut(s)	142
BseXI	GCAGC	3 cut(s)	312, 582, 912
Bsh1236I	CGCG	1 cut(s)	75
BshFI	GGCC	1 cut(s)	140
BshVI	ATCGAT	1 cut(s)	984
BsiHKAI	GWGCWC	3 cut(s)	569, 725, 733
BsiHKCI	CYCGRG	1 cut(s)	590
BsiSI	CCGG	2 cut(s)	225, 768
BslFI	GGGAC	1 cut(s)	207
BslI	CCNNNNNNNGG	1 cut(s)	500
BsmAI	GTCTC	2 cut(s)	341, 498
BsmFI	GGGAC	1 cut(s)	207
BsnI	GGCC	1 cut(s)	140
Bso31I	GGTCTC	1 cut(s)	498
BsoBI	CYCGRG	1 cut(s)	590
Bsp120I	GGGCCC	1 cut(s)	138
Bsp1286I	GDGCHC	4 cut(s)	142, 569, 725, 733
Bsp143I	GATC	1 cut(s)	13
BspACI	CCGC	5 cut(s)	21, 73, 233, 297, 801
BspANI	GGCC	1 cut(s)	140
BspCNI	CTCAG	3 cut(s)	498, 737, 807
BspDI	ATCGAT	1 cut(s)	984
BspFNI	CGCG	1 cut(s)	75
BspLI	GGNNCC	2 cut(s)	140, 223
BspMAI	CTGCAG	1 cut(s)	898
BspPI	GGATC	1 cut(s)	8
BspTNI	GGTCTC	1 cut(s)	498
BsrBI	CCGCTC	2 cut(s)	233, 801
BsrI	ACTGG	1 cut(s)	720
BssMI	GATC	1 cut(s)	13
BssNI	GRCGYC	3 cut(s)	99, 105, 659
Bst2UI	CCWGG	1 cut(s)	849
Bst4CI	ACNGT	2 cut(s)	85, 122
Bst6I	CTCTTC	1 cut(s)	750
BstACI	GRCGYC	3 cut(s)	99, 105, 659
BstC8I	GCNNGC	3 cut(s)	765, 932, 936
BstDEI	CTNAG	6 cut(s)	152, 304, 360, 485, 724, 815
BstF5I	GGATG	5 cut(s)	239, 241, 283, 382, 547
BstFNI	CGCG	1 cut(s)	75
BstHHI	GCGC	1 cut(s)	930
BstKTI	GATC	1 cut(s)	16
BstMAI	GTCTC	2 cut(s)	341, 498
BstMBI	GATC	1 cut(s)	13
BstMWI	GCNNNNNNNGC	5 cut(s)	72, 297, 401, 893, 931
BstNI	CCWGG	1 cut(s)	849
BstNSI	RCATGY	1 cut(s)	865
BstSCI	CCNGG	2 cut(s)	223, 847
BstSFI	CTRYAG	1 cut(s)	894
BstSLI	GKGCMC	1 cut(s)	142
BstUI	CGCG	1 cut(s)	75
BstV1I	GCAGC	3 cut(s)	312, 582, 912
BstV2I	GAAGAC	1 cut(s)	178
Bsu15I	ATCGAT	1 cut(s)	984
BsuRI	GGCC	1 cut(s)	140
BsuTUI	ATCGAT	1 cut(s)	984
BtsCI	GGATG	5 cut(s)	239, 241, 283, 382, 547
BtsI	GCAGTG	1 cut(s)	891
BtsIMutI	CAGTG	3 cut(s)	210, 713, 891
Cac8I	GCNNGC	3 cut(s)	765, 932, 936
CaiI	CAGNNNCTG	2 cut(s)	148, 677
CfoI	GCGC	1 cut(s)	930
Cfr13I	GGNCC	3 cut(s)	138, 139, 221
ClaI	ATCGAT	1 cut(s)	984
CseI	GACGC	2 cut(s)	107, 113
CsiI	ACCWGGT	1 cut(s)	847
Csp6I	GTAC	1 cut(s)	160
CviAII	CATG	1 cut(s)	862
CviQI	GTAC	1 cut(s)	160
DdeI	CTNAG	6 cut(s)	152, 304, 360, 485, 724, 815
DpnI	GATC	1 cut(s)	15
DpnII	GATC	1 cut(s)	13
Eam1104I	CTCTTC	1 cut(s)	750
EarI	CTCTTC	1 cut(s)	750
EciI	GGCGGA	1 cut(s)	10
Ecl136II	GAGCTC	1 cut(s)	723
Eco24I	GRGCYC	2 cut(s)	142, 725
Eco31I	GGTCTC	1 cut(s)	498
Eco47I	GGWCC	1 cut(s)	221
Eco53kI	GAGCTC	1 cut(s)	723
Eco57I	CTGAAG	3 cut(s)	186, 336, 398
Eco88I	CYCGRG	1 cut(s)	590
EcoICRI	GAGCTC	1 cut(s)	723
EcoRII	CCWGG	1 cut(s)	847
EcoT22I	ATGCAT	2 cut(s)	241, 911
EcoT38I	GRGCYC	2 cut(s)	142, 725
FaeI	CATG	1 cut(s)	865
FaiI	YATR	7 cut(s)	386, 453, 463, 558, 776, 837, 863
FaqI	GGGAC	1 cut(s)	207
FatI	CATG	1 cut(s)	861
Fnu4HI	GCNGC	4 cut(s)	298, 301, 596, 926
FokI	GGATG	5 cut(s)	226, 248, 290, 389, 554
FriOI	GRGCYC	2 cut(s)	142, 725
Fsp4HI	GCNGC	4 cut(s)	298, 301, 596, 926
FspBI	CTAG	1 cut(s)	821
GlaI	GCGC	1 cut(s)	929
GluI	GCNGC	4 cut(s)	298, 301, 596, 926
GsuI	CTGGAG	3 cut(s)	522, 620, 737
HaeIII	GGCC	1 cut(s)	140
HapII	CCGG	2 cut(s)	225, 768
HgaI	GACGC	2 cut(s)	107, 113
HhaI	GCGC	1 cut(s)	930
Hin1I	GRCGYC	3 cut(s)	99, 105, 659
Hin1II	CATG	1 cut(s)	865
Hin6I	GCGC	1 cut(s)	928
HinP1I	GCGC	1 cut(s)	928
HinfI	GANTC	2 cut(s)	145, 959
HpaII	CCGG	2 cut(s)	225, 768
HphI	GGTGA	1 cut(s)	837
Hpy166II	GTNNAC	1 cut(s)	793
Hpy188I	TCNGA	5 cut(s)	257, 266, 322, 417, 856
Hpy188III	TCNNGA	6 cut(s)	95, 125, 424, 501, 872, 950
Hpy8I	GTNNAC	1 cut(s)	793
Hpy99I	CGWCG	7 cut(s)	14, 30, 101, 107, 113, 116, 138
HpyAV	CCTTC	4 cut(s)	360, 651, 733, 737
HpyCH4III	ACNGT	2 cut(s)	85, 122
HpyCH4IV	ACGT	1 cut(s)	659
HpyCH4V	TGCA	7 cut(s)	208, 215, 239, 404, 680, 896, 909
HpyF10VI	GCNNNNNNNGC	5 cut(s)	72, 297, 401, 893, 931
HpyF3I	CTNAG	6 cut(s)	152, 304, 360, 485, 724, 815
HpySE526I	ACGT	1 cut(s)	659
Hsp92I	GRCGYC	3 cut(s)	99, 105, 659
Hsp92II	CATG	1 cut(s)	865
HspAI	GCGC	1 cut(s)	928
Kzo9I	GATC	1 cut(s)	13
LmnI	GCTCC	5 cut(s)	230, 266, 328, 736, 803
Lsp1109I	GCAGC	3 cut(s)	312, 582, 912
LweI	GCATC	7 cut(s)	226, 248, 268, 382, 391, 532, 918
MabI	ACCWGGT	1 cut(s)	847
MaeI	CTAG	1 cut(s)	821
MaeII	ACGT	1 cut(s)	659
MaeIII	GTNAC	2 cut(s)	379, 943
MalI	GATC	1 cut(s)	15
MbiI	CCGCTC	2 cut(s)	233, 801
MboI	GATC	1 cut(s)	13
MboII	GAAGA	5 cut(s)	183, 192, 401, 767, 913
MhlI	GDGCHC	4 cut(s)	142, 569, 725, 733
MluCI	AATT	1 cut(s)	530
MlyI	GAGTC	1 cut(s)	139
MmeI	TCCRAC	1 cut(s)	679
Mph1103I	ATGCAT	2 cut(s)	241, 911
MroXI	GAANNNNTTC	1 cut(s)	411
MseI	TTAA	1 cut(s)	519
MspI	CCGG	2 cut(s)	225, 768
MspR9I	CCNGG	2 cut(s)	225, 849
MvaI	CCWGG	1 cut(s)	849
MvnI	CGCG	1 cut(s)	75
MwoI	GCNNNNNNNGC	5 cut(s)	72, 297, 401, 893, 931
NciI	CCSGG	1 cut(s)	225
NdeII	GATC	1 cut(s)	13
NlaIII	CATG	1 cut(s)	865
NlaIV	GGNNCC	2 cut(s)	140, 223
NsiI	ATGCAT	2 cut(s)	241, 911
NspI	RCATGY	1 cut(s)	865
PcsI	WCGNNNNNNNCGW	3 cut(s)	34, 105, 111
PdmI	GAANNNNTTC	1 cut(s)	411
PfeI	GAWTC	1 cut(s)	959
PfoI	TCCNGGA	1 cut(s)	223
PkrI	GCNGC	4 cut(s)	299, 302, 597, 927
PleI	GAGTC	1 cut(s)	139
PpsI	GAGTC	1 cut(s)	139
Psp124BI	GAGCTC	1 cut(s)	725
Psp6I	CCWGG	1 cut(s)	847
PspGI	CCWGG	1 cut(s)	847
PspN4I	GGNNCC	2 cut(s)	140, 223
PspOMI	GGGCCC	1 cut(s)	138
PspPI	GGNCC	3 cut(s)	138, 139, 221
PstI	CTGCAG	1 cut(s)	898
PstNI	CAGNNNCTG	2 cut(s)	148, 677
RsaI	GTAC	1 cut(s)	161
RsaNI	GTAC	1 cut(s)	160
SacI	GAGCTC	1 cut(s)	725
SaqAI	TTAA	1 cut(s)	519
SatI	GCNGC	4 cut(s)	298, 301, 596, 926
Sau3AI	GATC	1 cut(s)	13
Sau96I	GGNCC	3 cut(s)	138, 139, 221
SchI	GAGTC	1 cut(s)	139
ScrFI	CCNGG	2 cut(s)	225, 849
SduI	GDGCHC	4 cut(s)	142, 569, 725, 733
SexAI	ACCWGGT	1 cut(s)	847
SfaNI	GCATC	7 cut(s)	226, 248, 268, 382, 391, 532, 918
SfcI	CTRYAG	1 cut(s)	894
SinI	GGWCC	1 cut(s)	221
SmlI	CTYRAG	1 cut(s)	870
SmoI	CTYRAG	1 cut(s)	870
Sse9I	AATT	1 cut(s)	530
SsiI	CCGC	5 cut(s)	21, 73, 233, 297, 801
SspMI	CTAG	1 cut(s)	821
SstI	GAGCTC	1 cut(s)	725
StyD4I	CCNGG	2 cut(s)	223, 847
TaaI	ACNGT	2 cut(s)	85, 122
TaiI	ACGT	1 cut(s)	662
TaqI	TCGA	2 cut(s)	189, 984
TasI	AATT	1 cut(s)	530
TatI	WGTACW	1 cut(s)	159
TauI	GCSGC	1 cut(s)	300
TfiI	GAWTC	1 cut(s)	959
Tru1I	TTAA	1 cut(s)	519
Tru9I	TTAA	1 cut(s)	519
TscAI	CASTG	3 cut(s)	210, 720, 898
TseI	GCWGC	3 cut(s)	300, 595, 925
TspDTI	ATGAA	1 cut(s)	34
TspGWI	ACGGA	1 cut(s)	389
TspRI	CASTG	3 cut(s)	210, 720, 898
VpaK11BI	GGWCC	1 cut(s)	221
XapI	RAATTY	1 cut(s)	530
XceI	RCATGY	1 cut(s)	865
XmnI	GAANNNNTTC	1 cut(s)	411
XspI	CTAG	1 cut(s)	821
ZraI	GACGTC	1 cut(s)	660
Zsp2I	ATGCAT	2 cut(s)	241, 911

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