Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0006103

Physical Location & Seq

Genomic Coordinates Reverse (-)

46320709 .. 46324223

Gene Structure 3515 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00425350.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1134 bp

ATGGAAGACGAAGACAGAGTGCAAAATACAGAGTCATCCCAAAAGAACAAGACGGTGATAAAGATACCATCTTTTCAAGAAGTTATAGAGAGCTCGCAGTCAAAATCAACCCCACCTTCTCTGTTTGCTCCCTCCAAAACCTTTTCTCAAGCTTTTGCCTTTGTCAAATCCTCTGAGTTTTACTCCCCCCAAAACCCCCAGAAACCTCTAACTCAAGGTACCCTTTTCCCAATTTCAATCCTTTCTTTATTTCTGGAAACTGGGCAATCTGGTGTTCCACCATCATCTGCTCCTACCAATGCTGTTGCATCTTCGTCATCTTCGCAGCGTCGCAATGCGATTCTTGTGAGCAACAGACAGAAGGGAAACCCCTTGCTGAAACATATTAGAAATGTGAGGTGGGAATTTGCAGATATTATTTGTGACTACTTACTCGGACAAAGCTCATGTGCACTCTATCTAAGTCTTCGTTATCATCTGCTGCATCCAGACTATTTATATTACCGCATAAGAGAATTGCAAAAGAACTACAAGCTTCGGGTCGTACTTTGCCATGTTGATGTGGAGGATGTAGTTAAGCCGTTACTTGAAGTTACTAAAACTGCCATGCTTCATGAGTGCACCCTATTATGTGCTTGGAGCTTGGAGGAATGTGGACGCTACTTGGAGACGATAAAAGTCTATGAAAACAAGCCTGCTGACATTATTCAAGGTCAAATGGATACAGACTATTTATCACGGCTAAATCATGCATTAACGACTGTTCGACATGTTAACAAGACTGATGTTGTCACCCTTGGAACTACTTTTGGGTCTCTTGCTCATGTCATGGATGTTTCGATGGAAGATCTAGCTCGTTGCCCTGGCATTGGAGAGCGCAAGCCGCCCTGCTGTATCAGAACCTTCTCCCCGAACAATGCTGAACCTTGTTCAGTTACCGAAGATAAAGAAATAAAGGATACTGAAGAAGAAAGCAAACGCAGGAAGAAAGAACCAGAACCGACTGTTAAGTCTGCCCTGTCTGCTGCTTTTGCCAAATATGCTGACAGAGTTAAAAAAAAGAAGTCACCAGAGTTGAAGAATGGAGATACAAGTGTTGCCATGGAAGCTGAAGCTGAAAAGGGAAAGTCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000014 GO:0000109 GO:0000110 GO:0000710 GO:0000724 GO:0000725 GO:0003674 GO:0003676 GO:0003677 GO:0003684 GO:0003697 GO:0003824 GO:0004518 GO:0004519 GO:0004520 GO:0004536 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006259 GO:0006281 GO:0006289 GO:0006294 GO:0006296 GO:0006298 GO:0006302 GO:0006310 GO:0006312 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0007049 GO:0008150 GO:0008152 GO:0009314 GO:0009411 GO:0009416 GO:0009628 GO:0009987 GO:0010212 GO:0010213 GO:0010224 GO:0010332 GO:0016043 GO:0016787 GO:0016788 GO:0016888 GO:0016893 GO:0017108 GO:0022402 GO:0022414 GO:0022607 GO:0032991 GO:0033554 GO:0033683 GO:0034622 GO:0034641 GO:0034644 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0048256 GO:0050896 GO:0051321 GO:0051716 GO:0061982 GO:0065003 GO:0065004 GO:0070522 GO:0070914 GO:0071214 GO:0071478 GO:0071482 GO:0071704 GO:0071824 GO:0071840 GO:0090304 GO:0090305 GO:0097159 GO:0104004 GO:0140097 GO:1901360 GO:1901363 GO:1903046 GO:1990391

KEGG Pathways

Metabolic & Signaling

ko01524 ko03420 ko03460 map01524 map03420 map03460

Pfam Domains

Protein Families

HHH_2 HHH_5 Rad10

Protein Analysis

377

Amino Acids

42.29

Weight (kDa)

8.22

Isoelectric Point (pI)

54.69

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rad10	PF03834	114 - 226	1.9e-46	Binding domain of DNA repair protein Ercc1 (rad10/Swi10)

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: OG0006103)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G05210 AT3G05210
fragaria_vesca	FvH4_6g05460 FvH4_6g05460 FvH4_6g05460 FvH4_6g05460 FvH4_6g05460 FvH4_6g05460 FvH4_6g05460
malus_domestica	MD04G1208500.v1.1
prunus_persica	Prupe.6G329400_v2.0.a1 Prupe.6G329400_v2.0.a1 Prupe.6G329400_v2.0.a1 Prupe.6G329400_v2.0.a1
pyrus_communis	pycom04g18460
rosa_chinensis	RchiOBHm_Chr3g0454231
rosa_laevigata	RLG00000025474
rosa_multiflora	Rmu_sc0026184.1_g000002 Rmu_sc0038077.1_g000001
rosa_roxburghii	Rroxscaffold_165G00437010 Rroxscaffold_6G00425350
rosa_rugosa	Rorug02G0653600
rosa_samantha	Rh3AG056900 Rh3BG058300 Rh3CG057500 Rh3DG058800
rosa_wichuraiana	Rw3G004380

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	1009
Acc65I	GGTACC	1 cut(s)	218
AccB1I	GGYRCC	1 cut(s)	218
AciI	CCGC	2 cut(s)	505, 884
AcsI	RAATTY	1 cut(s)	404
AcuI	CTGAAG	2 cut(s)	984, 1131
AfaI	GTAC	2 cut(s)	220, 546
AfiI	CCNNNNNNNGG	1 cut(s)	869
AflIII	ACRYGT	1 cut(s)	769
AgsI	TTSAA	5 cut(s)	77, 237, 590, 710, 1078
AjnI	CCWGG	1 cut(s)	862
AluBI	AGCT	8 cut(s)	93, 152, 444, 535, 642, 854, 1109, 1115
AluI	AGCT	8 cut(s)	93, 152, 444, 535, 642, 854, 1109, 1115
Alw21I	GWGCWC	3 cut(s)	95, 454, 623
Alw26I	GTCTC	2 cut(s)	662, 819
Alw44I	GTGCAC	2 cut(s)	450, 619
ApaLI	GTGCAC	2 cut(s)	450, 619
ApeKI	GCWGC	3 cut(s)	325, 481, 1025
ApoI	RAATTY	1 cut(s)	404
Asp718I	GGTACC	1 cut(s)	218
AspLEI	GCGC	1 cut(s)	879
AsuHPI	GGTGA	3 cut(s)	67, 784, 1059
BaeGI	GKGCMC	2 cut(s)	454, 623
BaeI	ACNNNNGTAYC	2 cut(s)	1080, 1113
BanI	GGYRCC	1 cut(s)	218
BanII	GRGCYC	1 cut(s)	95
BbsI	GAAGAC	3 cut(s)	12, 18, 458
Bbv12I	GWGCWC	3 cut(s)	95, 454, 623
BbvI	GCAGC	3 cut(s)	337, 468, 1012
BccI	CCATC	3 cut(s)	76, 289, 835
BceAI	ACGGC	2 cut(s)	565, 755
BciT130I	CCWGG	1 cut(s)	864
BciVI	GTATCC	2 cut(s)	715, 952
BcoDI	GTCTC	2 cut(s)	662, 819
BfaI	CTAG	1 cut(s)	851
BfuI	GTATCC	2 cut(s)	715, 952
BglII	AGATCT	1 cut(s)	847
BisI	GCNGC	4 cut(s)	326, 482, 884, 1026
BlsI	GCNGC	4 cut(s)	327, 483, 885, 1027
Bme1390I	CCNGG	1 cut(s)	864
BmiI	GGNNCC	1 cut(s)	220
BmrFI	CCNGG	1 cut(s)	864
BmrI	ACTGGG	1 cut(s)	270
BmsI	GCATC	2 cut(s)	317, 493
BmuI	ACTGGG	1 cut(s)	270
BpiI	GAAGAC	3 cut(s)	12, 18, 458
BplI	GAGNNNNNCTC	2 cut(s)	167, 199
BpuEI	CTTGAG	2 cut(s)	132, 198
BsaI	GGTCTC	1 cut(s)	819
BsaJI	CCNNGG	3 cut(s)	796, 862, 1101
Bsc4I	CCNNNNNNNGG	1 cut(s)	869
Bse1I	ACTGG	1 cut(s)	265
Bse3DI	GCAATG	1 cut(s)	340
BseBI	CCWGG	1 cut(s)	864
BseDI	CCNNGG	3 cut(s)	796, 862, 1101
BseGI	GGATG	4 cut(s)	35, 484, 574, 838
BseLI	CCNNNNNNNGG	1 cut(s)	869
BseMI	GCAATG	1 cut(s)	340
BseMII	CTCAG	1 cut(s)	165
BseNI	ACTGG	1 cut(s)	265
BseSI	GKGCMC	2 cut(s)	454, 623
BseXI	GCAGC	3 cut(s)	337, 468, 1012
BshNI	GGYRCC	1 cut(s)	218
BsiHKAI	GWGCWC	3 cut(s)	95, 454, 623
BslI	CCNNNNNNNGG	1 cut(s)	869
BsmAI	GTCTC	2 cut(s)	662, 819
BsmBI	CGTCTC	1 cut(s)	662
Bso31I	GGTCTC	1 cut(s)	819
Bsp1286I	GDGCHC	3 cut(s)	95, 454, 623
Bsp143I	GATC	1 cut(s)	847
Bsp19I	CCATGG	1 cut(s)	1101
BspACI	CCGC	2 cut(s)	505, 884
BspCNI	CTCAG	1 cut(s)	166
BspHI	TCATGA	1 cut(s)	613
BspLI	GGNNCC	1 cut(s)	220
BspT107I	GGYRCC	1 cut(s)	218
BspTNI	GGTCTC	1 cut(s)	819
BsrDI	GCAATG	1 cut(s)	340
BsrI	ACTGG	1 cut(s)	265
BssECI	CCNNGG	3 cut(s)	796, 862, 1101
BssMI	GATC	1 cut(s)	847
BssT1I	CCWWGG	2 cut(s)	796, 1101
Bst2UI	CCWGG	1 cut(s)	864
Bst4CI	ACNGT	3 cut(s)	55, 763, 1006
BstC8I	GCNNGC	3 cut(s)	95, 696, 881
BstDEI	CTNAG	2 cut(s)	174, 461
BstDSI	CCRYGG	1 cut(s)	1101
BstF5I	GGATG	4 cut(s)	35, 484, 574, 838
BstHHI	GCGC	1 cut(s)	879
BstKTI	GATC	1 cut(s)	850
BstMAI	GTCTC	2 cut(s)	662, 819
BstMBI	GATC	1 cut(s)	847
BstMWI	GCNNNNNNNGC	5 cut(s)	883, 1022, 1031, 1040, 1106
BstNI	CCWGG	1 cut(s)	864
BstNSI	RCATGY	1 cut(s)	773
BstSCI	CCNGG	1 cut(s)	862
BstSLI	GKGCMC	2 cut(s)	454, 623
BstV1I	GCAGC	3 cut(s)	337, 468, 1012
BstV2I	GAAGAC	3 cut(s)	12, 18, 458
BstX2I	RGATCY	1 cut(s)	847
BstYI	RGATCY	1 cut(s)	847
BsuI	GTATCC	2 cut(s)	715, 952
BtgI	CCRYGG	1 cut(s)	1101
BtsCI	GGATG	4 cut(s)	35, 484, 574, 838
Cac8I	GCNNGC	3 cut(s)	95, 696, 881
CciI	TCATGA	1 cut(s)	613
CfoI	GCGC	1 cut(s)	879
CseI	GACGC	2 cut(s)	317, 666
Csp6I	GTAC	2 cut(s)	219, 545
CviAII	CATG	9 cut(s)	447, 554, 607, 614, 749, 770, 824, 829, 1102
CviQI	GTAC	2 cut(s)	219, 545
DdeI	CTNAG	2 cut(s)	174, 461
DpnI	GATC	1 cut(s)	849
DpnII	GATC	1 cut(s)	847
DrdI	GACNNNNNNGTC	1 cut(s)	1009
DseDI	GACNNNNNNGTC	1 cut(s)	1009
Ecl136II	GAGCTC	1 cut(s)	93
Eco130I	CCWWGG	2 cut(s)	796, 1101
Eco24I	GRGCYC	1 cut(s)	95
Eco31I	GGTCTC	1 cut(s)	819
Eco53kI	GAGCTC	1 cut(s)	93
Eco57I	CTGAAG	2 cut(s)	984, 1131
EcoICRI	GAGCTC	1 cut(s)	93
EcoRII	CCWGG	1 cut(s)	862
EcoT14I	CCWWGG	2 cut(s)	796, 1101
EcoT22I	ATGCAT	1 cut(s)	754
EcoT38I	GRGCYC	1 cut(s)	95
ErhI	CCWWGG	2 cut(s)	796, 1101
Esp3I	CGTCTC	1 cut(s)	662
FaeI	CATG	9 cut(s)	450, 557, 610, 617, 752, 773, 827, 832, 1105
FalI	AAGNNNNNCTT	2 cut(s)	207, 239
FatI	CATG	9 cut(s)	446, 553, 606, 613, 748, 769, 823, 828, 1101
Fnu4HI	GCNGC	4 cut(s)	326, 482, 884, 1026
FokI	GGATG	4 cut(s)	22, 471, 581, 845
FriOI	GRGCYC	1 cut(s)	95
Fsp4HI	GCNGC	4 cut(s)	326, 482, 884, 1026
FspBI	CTAG	1 cut(s)	851
GlaI	GCGC	1 cut(s)	878
GluI	GCNGC	4 cut(s)	326, 482, 884, 1026
HgaI	GACGC	2 cut(s)	317, 666
HhaI	GCGC	1 cut(s)	879
Hin1II	CATG	9 cut(s)	450, 557, 610, 617, 752, 773, 827, 832, 1105
Hin6I	GCGC	1 cut(s)	877
HinP1I	GCGC	1 cut(s)	877
HincII	GTYRAC	1 cut(s)	775
HindII	GTYRAC	1 cut(s)	775
HindIII	AAGCTT	2 cut(s)	150, 533
HinfI	GANTC	2 cut(s)	32, 340
HpaI	GTTAAC	1 cut(s)	775
HphI	GGTGA	3 cut(s)	67, 784, 1059
Hpy166II	GTNNAC	4 cut(s)	452, 621, 656, 775
Hpy188I	TCNGA	3 cut(s)	175, 437, 899
Hpy188III	TCNNGA	4 cut(s)	77, 254, 488, 614
Hpy8I	GTNNAC	4 cut(s)	452, 621, 656, 775
Hpy99I	CGWCG	1 cut(s)	333
HpyAV	CCTTC	3 cut(s)	126, 355, 913
HpyCH4III	ACNGT	3 cut(s)	55, 763, 1006
HpyCH4V	TGCA	8 cut(s)	22, 308, 410, 452, 484, 520, 621, 752
HpyF10VI	GCNNNNNNNGC	5 cut(s)	883, 1022, 1031, 1040, 1106
HpyF3I	CTNAG	2 cut(s)	174, 461
Hsp92II	CATG	9 cut(s)	450, 557, 610, 617, 752, 773, 827, 832, 1105
HspAI	GCGC	1 cut(s)	877
KpnI	GGTACC	1 cut(s)	222
KspAI	GTTAAC	1 cut(s)	775
Kzo9I	GATC	1 cut(s)	847
LmnI	GCTCC	3 cut(s)	133, 295, 639
Lsp1109I	GCAGC	3 cut(s)	337, 468, 1012
LweI	GCATC	2 cut(s)	317, 493
MaeI	CTAG	1 cut(s)	851
MaeIII	GTNAC	6 cut(s)	422, 582, 592, 790, 934, 1065
MalI	GATC	1 cut(s)	849
MboI	GATC	1 cut(s)	847
MflI	RGATCY	1 cut(s)	847
MhlI	GDGCHC	3 cut(s)	95, 454, 623
MluCI	AATT	3 cut(s)	231, 404, 515
MlyI	GAGTC	1 cut(s)	41
MnlI	CCTC	6 cut(s)	142, 181, 216, 390, 559, 640
Mph1103I	ATGCAT	1 cut(s)	754
MseI	TTAA	5 cut(s)	576, 755, 774, 1008, 1053
MslI	CAYNNNNRTG	1 cut(s)	558
MspR9I	CCNGG	1 cut(s)	864
MvaI	CCWGG	1 cut(s)	864
MwoI	GCNNNNNNNGC	5 cut(s)	883, 1022, 1031, 1040, 1106
NcoI	CCATGG	1 cut(s)	1101
NdeII	GATC	1 cut(s)	847
NlaIII	CATG	9 cut(s)	450, 557, 610, 617, 752, 773, 827, 832, 1105
NlaIV	GGNNCC	1 cut(s)	220
NmuCI	GTSAC	3 cut(s)	422, 790, 1065
NsiI	ATGCAT	1 cut(s)	754
NspI	RCATGY	1 cut(s)	773
PagI	TCATGA	1 cut(s)	613
PciI	ACATGT	1 cut(s)	769
PfeI	GAWTC	1 cut(s)	340
PkrI	GCNGC	4 cut(s)	327, 483, 885, 1027
PleI	GAGTC	1 cut(s)	40
PpsI	GAGTC	1 cut(s)	40
PscI	ACATGT	1 cut(s)	769
Psp124BI	GAGCTC	1 cut(s)	95
Psp6I	CCWGG	1 cut(s)	862
PspGI	CCWGG	1 cut(s)	862
PspN4I	GGNNCC	1 cut(s)	220
PsuI	RGATCY	1 cut(s)	847
RsaI	GTAC	2 cut(s)	220, 546
RsaNI	GTAC	2 cut(s)	219, 545
RseI	CAYNNNNRTG	1 cut(s)	558
SacI	GAGCTC	1 cut(s)	95
SaqAI	TTAA	5 cut(s)	576, 755, 774, 1008, 1053
SatI	GCNGC	4 cut(s)	326, 482, 884, 1026
Sau3AI	GATC	1 cut(s)	847
SchI	GAGTC	1 cut(s)	41
ScrFI	CCNGG	1 cut(s)	864
SduI	GDGCHC	3 cut(s)	95, 454, 623
SfaNI	GCATC	2 cut(s)	317, 493
SmiMI	CAYNNNNRTG	1 cut(s)	558
SmlI	CTYRAG	2 cut(s)	147, 213
SmoI	CTYRAG	2 cut(s)	147, 213
Sse9I	AATT	3 cut(s)	231, 404, 515
SsiI	CCGC	2 cut(s)	505, 884
SspMI	CTAG	1 cut(s)	851
SstI	GAGCTC	1 cut(s)	95
StyD4I	CCNGG	1 cut(s)	862
StyI	CCWWGG	2 cut(s)	796, 1101
TaaI	ACNGT	3 cut(s)	55, 763, 1006
TaqI	TCGA	2 cut(s)	766, 839
TasI	AATT	3 cut(s)	231, 404, 515
TauI	GCSGC	1 cut(s)	886
TfiI	GAWTC	1 cut(s)	340
Tru1I	TTAA	5 cut(s)	576, 755, 774, 1008, 1053
Tru9I	TTAA	5 cut(s)	576, 755, 774, 1008, 1053
TseFI	GTSAC	3 cut(s)	422, 790, 1065
TseI	GCWGC	3 cut(s)	325, 481, 1025
Tsp45I	GTSAC	3 cut(s)	422, 790, 1065
TspDTI	ATGAA	2 cut(s)	602, 699
VneI	GTGCAC	2 cut(s)	450, 619
XapI	RAATTY	1 cut(s)	404
XceI	RCATGY	1 cut(s)	773
XspI	CTAG	1 cut(s)	851
Zsp2I	ATGCAT	1 cut(s)	754

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