Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0006103

Physical Location & Seq

Genomic Coordinates Forward (+)

4361278 .. 4365214

Gene Structure 3937 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ42125

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1155 bp

ATGGAAGACGAAGACAGAGTGCAAAATACAGAGTCATCCCAAAAGAACAAGACGGTGATAAAGATACCATCTTTTCAAGAAGTTATAGAGAGTTCGCAGTCAAAATCAACCCCACCTTCTCTGTTTGCTCCCTCCAAAACCTTTTCTCAAGCTTTTGCCTTTGTCAAATCCTCTGAGTTTTACTCCCCCCCAAAACCCCAGAAACCTCTAACTCAAGGTTTGGAAACTGGGCCATCTGGTGTTCCACCATCATCTGCTCCTACCAATGCTGTTGCATCTTCGTCATCTTCGCAGCGTCGCAATGCGATTCTTGTGAGCAACAGACAGAAGGGAAACCCCTTGCTGAAACATATCAGAAATGTGAGGTGGGAATTTGCAGATATTATTTGTGACTACTTACTCGGACAAAGCTCATGTGCACTCTATCTAAGTCTTCGTTATCACCTGCTGCATCCAGATTATCTATATTACCGTATAAGAGAATTGCAAAAGAATTACAAGCTTCGGGTTGTACTTTGCCATGTTGATGTGGAGGATGTAGTTAAGCCGTTACTTGAAGTTACTAAAACTGCCATGCTTCATGAGTGCACCCTATTATGTGCTTGGAGCTTGGAGGAATGTGGACGCTACTTGGAGACGATAAAAGTCTATGAAAACAAGCCTGCTGACATTATTCAAGGTCAAATGGATACAGACTATTTATCACGGCTAAATCATGCATTAACGACTGTTCGACATGTTAACAAGACTGATGTTGTCACCCTTGGAACTACTTTTGGGTCTCTTGCTCATGTTATGGATGTTTCGATGGAAGATCTAGCTCGTTGCCCTGGCATTGGAGAGCGCAAGGTAAAACGTTTGTATGACACATTTCATGAACCATTTAAGCGTGTGGTTGCCAGCCGCCCTGCTGTATCAGAATCTTCTCCCCCGAACAATGCTGAACCTTGTTCAGTTACCGAAGATAAAGAAATAAAGGATACTGAAGAAGAAAACAAACGCAGGAAGAAAGAACCAGAACCGACTGTTAAGTCTGCCCTGTCTGCTGCTTTTGCCAAATATGCTGACAGAGTTAAAAAAAAGAAGTCACCAGAGTTGAAGAATGGAGATACTAGTGTTTCCATGGAAGCTGAAGCTGAAAAGGGAAAGTCATAA

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

384

Amino Acids

43.13

Weight (kDa)

8.6

Isoelectric Point (pI)

58.08

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rad10	PF03834	103 - 215	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

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Align Labels (Cladogram)

Image

Tree File

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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)
AarI	CACCTGC	1 cut(s)	453
AasI	GACNNNNNNGTC	1 cut(s)	1030
Acc36I	ACCTGC	1 cut(s)	453
AciI	CCGC	1 cut(s)	904
AclI	AACGTT	1 cut(s)	856
AcsI	RAATTY	1 cut(s)	371
AcuI	CTGAAG	2 cut(s)	1005, 1152
AfaI	GTAC	1 cut(s)	513
AfiI	CCNNNNNNNGG	1 cut(s)	836
AflIII	ACRYGT	1 cut(s)	736
AgsI	TTSAA	4 cut(s)	77, 557, 677, 1099
AhlI	ACTAGT	1 cut(s)	1112
AjnI	CCWGG	1 cut(s)	829
AluBI	AGCT	7 cut(s)	152, 411, 502, 609, 821, 1130, 1136
AluI	AGCT	7 cut(s)	152, 411, 502, 609, 821, 1130, 1136
Alw21I	GWGCWC	2 cut(s)	421, 590
Alw26I	GTCTC	2 cut(s)	629, 786
Alw44I	GTGCAC	2 cut(s)	417, 586
AoxI	GGCC	1 cut(s)	230
ApaLI	GTGCAC	2 cut(s)	417, 586
ApeKI	GCWGC	3 cut(s)	292, 448, 1046
ApoI	RAATTY	1 cut(s)	371
AspLEI	GCGC	1 cut(s)	846
AspS9I	GGNCC	1 cut(s)	230
AsuHPI	GGTGA	4 cut(s)	67, 434, 751, 1080
BaeGI	GKGCMC	2 cut(s)	421, 590
BaeI	ACNNNNGTAYC	2 cut(s)	1101, 1134
BbsI	GAAGAC	3 cut(s)	12, 18, 425
Bbv12I	GWGCWC	2 cut(s)	421, 590
BbvI	GCAGC	3 cut(s)	304, 435, 1033
BccI	CCATC	4 cut(s)	76, 241, 256, 802
BceAI	ACGGC	2 cut(s)	532, 722
BciT130I	CCWGG	1 cut(s)	831
BciVI	GTATCC	2 cut(s)	682, 973
BcoDI	GTCTC	2 cut(s)	629, 786
BcuI	ACTAGT	1 cut(s)	1112
BfaI	CTAG	2 cut(s)	818, 1113
BfuAI	ACCTGC	1 cut(s)	453
BfuI	GTATCC	2 cut(s)	682, 973
BglII	AGATCT	1 cut(s)	814
BisI	GCNGC	4 cut(s)	293, 449, 904, 1047
BlsI	GCNGC	4 cut(s)	294, 450, 905, 1048
Bme1390I	CCNGG	1 cut(s)	831
BmgT120I	GGNCC	1 cut(s)	230
BmrFI	CCNGG	1 cut(s)	831
BmrI	ACTGGG	1 cut(s)	237
BmsI	GCATC	2 cut(s)	284, 460
BmuI	ACTGGG	1 cut(s)	237
BpiI	GAAGAC	3 cut(s)	12, 18, 425
BplI	GAGNNNNNCTC	2 cut(s)	167, 199
BpuEI	CTTGAG	2 cut(s)	132, 198
BsaI	GGTCTC	1 cut(s)	786
BsaJI	CCNNGG	3 cut(s)	763, 829, 1122
Bsc4I	CCNNNNNNNGG	1 cut(s)	836
Bse1I	ACTGG	1 cut(s)	232
Bse3DI	GCAATG	1 cut(s)	307
BseBI	CCWGG	1 cut(s)	831
BseDI	CCNNGG	3 cut(s)	763, 829, 1122
BseGI	GGATG	4 cut(s)	35, 451, 541, 805
BseLI	CCNNNNNNNGG	1 cut(s)	836
BseMI	GCAATG	1 cut(s)	307
BseMII	CTCAG	1 cut(s)	165
BseNI	ACTGG	1 cut(s)	232
BseSI	GKGCMC	2 cut(s)	421, 590
BseXI	GCAGC	3 cut(s)	304, 435, 1033
BshFI	GGCC	1 cut(s)	232
BsiHKAI	GWGCWC	2 cut(s)	421, 590
BslI	CCNNNNNNNGG	1 cut(s)	836
BsmAI	GTCTC	2 cut(s)	629, 786
BsmBI	CGTCTC	1 cut(s)	629
BsnI	GGCC	1 cut(s)	232
Bso31I	GGTCTC	1 cut(s)	786
Bsp1286I	GDGCHC	2 cut(s)	421, 590
Bsp143I	GATC	1 cut(s)	814
Bsp19I	CCATGG	1 cut(s)	1122
BspACI	CCGC	1 cut(s)	904
BspANI	GGCC	1 cut(s)	232
BspCNI	CTCAG	1 cut(s)	166
BspHI	TCATGA	2 cut(s)	580, 874
BspMI	ACCTGC	1 cut(s)	453
BspTNI	GGTCTC	1 cut(s)	786
BsrDI	GCAATG	1 cut(s)	307
BsrI	ACTGG	1 cut(s)	232
BssECI	CCNNGG	3 cut(s)	763, 829, 1122
BssMI	GATC	1 cut(s)	814
BssT1I	CCWWGG	2 cut(s)	763, 1122
Bst2UI	CCWGG	1 cut(s)	831
Bst4CI	ACNGT	4 cut(s)	55, 473, 730, 1027
BstC8I	GCNNGC	2 cut(s)	663, 901
BstDEI	CTNAG	2 cut(s)	174, 428
BstDSI	CCRYGG	1 cut(s)	1122
BstF5I	GGATG	4 cut(s)	35, 451, 541, 805
BstHHI	GCGC	1 cut(s)	846
BstKTI	GATC	1 cut(s)	817
BstMAI	GTCTC	2 cut(s)	629, 786
BstMBI	GATC	1 cut(s)	814
BstMWI	GCNNNNNNNGC	3 cut(s)	1043, 1052, 1061
BstNI	CCWGG	1 cut(s)	831
BstNSI	RCATGY	1 cut(s)	740
BstSCI	CCNGG	1 cut(s)	829
BstSLI	GKGCMC	2 cut(s)	421, 590
BstV1I	GCAGC	3 cut(s)	304, 435, 1033
BstV2I	GAAGAC	3 cut(s)	12, 18, 425
BstX2I	RGATCY	1 cut(s)	814
BstYI	RGATCY	1 cut(s)	814
BsuI	GTATCC	2 cut(s)	682, 973
BsuRI	GGCC	1 cut(s)	232
BtgI	CCRYGG	1 cut(s)	1122
BtsCI	GGATG	4 cut(s)	35, 451, 541, 805
BveI	ACCTGC	1 cut(s)	453
Cac8I	GCNNGC	2 cut(s)	663, 901
CciI	TCATGA	2 cut(s)	580, 874
CfoI	GCGC	1 cut(s)	846
Cfr13I	GGNCC	1 cut(s)	230
CseI	GACGC	2 cut(s)	284, 633
Csp6I	GTAC	1 cut(s)	512
CviAII	CATG	9 cut(s)	414, 521, 574, 581, 716, 737, 791, 875, 1123
CviQI	GTAC	1 cut(s)	512
DdeI	CTNAG	2 cut(s)	174, 428
DpnI	GATC	1 cut(s)	816
DpnII	GATC	1 cut(s)	814
DrdI	GACNNNNNNGTC	1 cut(s)	1030
DseDI	GACNNNNNNGTC	1 cut(s)	1030
Eco130I	CCWWGG	2 cut(s)	763, 1122
Eco31I	GGTCTC	1 cut(s)	786
Eco57I	CTGAAG	2 cut(s)	1005, 1152
EcoRII	CCWGG	1 cut(s)	829
EcoT14I	CCWWGG	2 cut(s)	763, 1122
EcoT22I	ATGCAT	1 cut(s)	721
ErhI	CCWWGG	2 cut(s)	763, 1122
Esp3I	CGTCTC	1 cut(s)	629
FaeI	CATG	9 cut(s)	417, 524, 577, 584, 719, 740, 794, 878, 1126
FatI	CATG	9 cut(s)	413, 520, 573, 580, 715, 736, 790, 874, 1122
Fnu4HI	GCNGC	4 cut(s)	293, 449, 904, 1047
FokI	GGATG	4 cut(s)	22, 438, 548, 812
Fsp4HI	GCNGC	4 cut(s)	293, 449, 904, 1047
FspBI	CTAG	2 cut(s)	818, 1113
GlaI	GCGC	1 cut(s)	845
GluI	GCNGC	4 cut(s)	293, 449, 904, 1047
HaeIII	GGCC	1 cut(s)	232
HgaI	GACGC	2 cut(s)	284, 633
HhaI	GCGC	1 cut(s)	846
Hin1II	CATG	9 cut(s)	417, 524, 577, 584, 719, 740, 794, 878, 1126
Hin6I	GCGC	1 cut(s)	844
HinP1I	GCGC	1 cut(s)	844
HincII	GTYRAC	1 cut(s)	742
HindII	GTYRAC	1 cut(s)	742
HindIII	AAGCTT	2 cut(s)	150, 500
HinfI	GANTC	3 cut(s)	32, 307, 920
HpaI	GTTAAC	1 cut(s)	742
HphI	GGTGA	4 cut(s)	67, 434, 751, 1080
Hpy166II	GTNNAC	4 cut(s)	419, 588, 623, 742
Hpy188I	TCNGA	4 cut(s)	175, 356, 404, 919
Hpy188III	TCNNGA	4 cut(s)	77, 455, 581, 875
Hpy8I	GTNNAC	4 cut(s)	419, 588, 623, 742
Hpy99I	CGWCG	1 cut(s)	300
HpyAV	CCTTC	2 cut(s)	126, 322
HpyCH4III	ACNGT	4 cut(s)	55, 473, 730, 1027
HpyCH4IV	ACGT	1 cut(s)	856
HpyCH4V	TGCA	8 cut(s)	22, 275, 377, 419, 451, 487, 588, 719
HpyF10VI	GCNNNNNNNGC	3 cut(s)	1043, 1052, 1061
HpyF3I	CTNAG	2 cut(s)	174, 428
HpySE526I	ACGT	1 cut(s)	856
Hsp92II	CATG	9 cut(s)	417, 524, 577, 584, 719, 740, 794, 878, 1126
HspAI	GCGC	1 cut(s)	844
KspAI	GTTAAC	1 cut(s)	742
Kzo9I	GATC	1 cut(s)	814
LmnI	GCTCC	3 cut(s)	133, 262, 606
Lsp1109I	GCAGC	3 cut(s)	304, 435, 1033
LweI	GCATC	2 cut(s)	284, 460
MaeI	CTAG	2 cut(s)	818, 1113
MaeII	ACGT	1 cut(s)	856
MaeIII	GTNAC	6 cut(s)	389, 549, 559, 757, 955, 1086
MalI	GATC	1 cut(s)	816
MboI	GATC	1 cut(s)	814
MflI	RGATCY	1 cut(s)	814
MhlI	GDGCHC	2 cut(s)	421, 590
MluCI	AATT	3 cut(s)	371, 482, 493
MlyI	GAGTC	1 cut(s)	41
MnlI	CCTC	6 cut(s)	142, 181, 216, 357, 526, 607
Mph1103I	ATGCAT	1 cut(s)	721
MseI	TTAA	6 cut(s)	543, 722, 741, 885, 1029, 1074
MslI	CAYNNNNRTG	1 cut(s)	525
MspR9I	CCNGG	1 cut(s)	831
MvaI	CCWGG	1 cut(s)	831
MwoI	GCNNNNNNNGC	3 cut(s)	1043, 1052, 1061
NcoI	CCATGG	1 cut(s)	1122
NdeII	GATC	1 cut(s)	814
NlaIII	CATG	9 cut(s)	417, 524, 577, 584, 719, 740, 794, 878, 1126
NmuCI	GTSAC	3 cut(s)	389, 757, 1086
NsiI	ATGCAT	1 cut(s)	721
NspI	RCATGY	1 cut(s)	740
PagI	TCATGA	2 cut(s)	580, 874
PaqCI	CACCTGC	1 cut(s)	453
PciI	ACATGT	1 cut(s)	736
PfeI	GAWTC	2 cut(s)	307, 920
PkrI	GCNGC	4 cut(s)	294, 450, 905, 1048
PleI	GAGTC	1 cut(s)	40
PpsI	GAGTC	1 cut(s)	40
PscI	ACATGT	1 cut(s)	736
Psp1406I	AACGTT	1 cut(s)	856
Psp6I	CCWGG	1 cut(s)	829
PspGI	CCWGG	1 cut(s)	829
PspPI	GGNCC	1 cut(s)	230
PsuI	RGATCY	1 cut(s)	814
RsaI	GTAC	1 cut(s)	513
RsaNI	GTAC	1 cut(s)	512
RseI	CAYNNNNRTG	1 cut(s)	525
SaqAI	TTAA	6 cut(s)	543, 722, 741, 885, 1029, 1074
SatI	GCNGC	4 cut(s)	293, 449, 904, 1047
Sau3AI	GATC	1 cut(s)	814
Sau96I	GGNCC	1 cut(s)	230
SchI	GAGTC	1 cut(s)	41
ScrFI	CCNGG	1 cut(s)	831
SduI	GDGCHC	2 cut(s)	421, 590
SfaNI	GCATC	2 cut(s)	284, 460
SmiMI	CAYNNNNRTG	1 cut(s)	525
SmlI	CTYRAG	2 cut(s)	147, 213
SmoI	CTYRAG	2 cut(s)	147, 213
SpeI	ACTAGT	1 cut(s)	1112
Sse9I	AATT	3 cut(s)	371, 482, 493
SsiI	CCGC	1 cut(s)	904
SspMI	CTAG	2 cut(s)	818, 1113
StyD4I	CCNGG	1 cut(s)	829
StyI	CCWWGG	2 cut(s)	763, 1122
TaaI	ACNGT	4 cut(s)	55, 473, 730, 1027
TaiI	ACGT	1 cut(s)	859
TaqI	TCGA	2 cut(s)	733, 806
TasI	AATT	3 cut(s)	371, 482, 493
TatI	WGTACW	1 cut(s)	511
TauI	GCSGC	1 cut(s)	906
TfiI	GAWTC	2 cut(s)	307, 920
Tru1I	TTAA	6 cut(s)	543, 722, 741, 885, 1029, 1074
Tru9I	TTAA	6 cut(s)	543, 722, 741, 885, 1029, 1074
TseFI	GTSAC	3 cut(s)	389, 757, 1086
TseI	GCWGC	3 cut(s)	292, 448, 1046
Tsp45I	GTSAC	3 cut(s)	389, 757, 1086
TspDTI	ATGAA	4 cut(s)	569, 666, 863, 891
VneI	GTGCAC	2 cut(s)	417, 586
XapI	RAATTY	1 cut(s)	371
XceI	RCATGY	1 cut(s)	740
XspI	CTAG	2 cut(s)	818, 1113
Zsp2I	ATGCAT	1 cut(s)	721

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