Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0006103

Physical Location & Seq

Genomic Coordinates Forward (+)

3975682 .. 3979206

Gene Structure 3525 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG058800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1152 bp

ATGGAAGACGAAGACAGAGTGCAAAATACAGAGTCATCCCAAAAGAACAAGACGGTGATAAAGATACCATCTTTTCAAGAAGTTATAGAGAGTTCGCAGTCAAAATCAACCCCACCTTCTCTGTTTGCTCCCTCCAAAACCTTTTCTCAAGCTTTTGCCTTTGTCAAATCCTCTGAGTTTTACTCCCCCCCAAAACCCCCAGAAACCTCTAACTCAAGGGAAACTGGGCCATCTGGTGTTCCACCATCATCTGCTCCTACCAATGCTGTTGCATCTTCGTCATCTTCGCAGCGTCGCAATGCGATTCTTGTGAGCAACAGACAGAAGGGAAACCCCTTGCTGAAACATATCAGAAATGTGAGGTGGGAATTTGCAGATATTATTTGTGACTACTTACTCGGACAAAGCTCATGTGCACTCTATCTAAGTCTTCGTTATCACCTGCTGCATCCAGATTATCTATATTACCGCATAAGAGAATTGCAAAAGAATTACAAGCTTCGGGTTGTACTTTGCCATGTTGATGTGGAGGATGTAGTTAAGCCGTTACTTGAAGTTACTAAAACTGCCATGCTCCATGAGTGCACCCTATTATGTGCTTGGAGCTTGGAGGAATGTGGACGTTACTTGGAGACGATAAAAGTCTATGAAAACAAGCCTGCTGACATTATTCAAGGTCAAATGGATACAGACTATTTATCACGGCTAAATCATGCATTAACGACTGTTCGACATGTTAACAAGACTGATGTTGTCACCCTTGGAACTACTTTTGGGTCTCTTGCTCATGTCATGGATGTTTCGATGGAAGATCTAGCTCGTTGCCCTGGCATTGGAGAGCGCAAGGTAAAACGTTTGTATGACACATTTCATGAACCATTTAAGCGTGTGGTTGCCAGCCGCCCTGCTGTATCAGAATCTTCTCCCCCGAACAATGCTGAACCTTGTTCAGTTACCGAAGATAAAGAAATAAAGGATACTGAAGAAGAAAACAAACGCAGGAAGAAAGAACCAGAGCCAACTGTTAAGTCTGCCCTGTCTGCTGCTTTTGCCAAATATGCTGACAGAGTTAAAAAAAAGAAGTCACCAGAGTTGAAGAATGGAGATACTAGTGTTGCCATGGAAGCTGAAGCTGAAAAGGGAAAGTCATAA

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

383

Amino Acids

43.02

Weight (kDa)

8.46

Isoelectric Point (pI)

59.56

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rad10	PF03834	102 - 214	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)
AarI	CACCTGC	1 cut(s)	450
Acc36I	ACCTGC	1 cut(s)	450
AciI	CCGC	2 cut(s)	469, 901
AclI	AACGTT	1 cut(s)	853
AcsI	RAATTY	1 cut(s)	368
AcuI	CTGAAG	2 cut(s)	1002, 1149
AfaI	GTAC	1 cut(s)	510
AfiI	CCNNNNNNNGG	1 cut(s)	833
AflIII	ACRYGT	1 cut(s)	733
AgsI	TTSAA	4 cut(s)	77, 554, 674, 1096
AhlI	ACTAGT	1 cut(s)	1109
AjnI	CCWGG	1 cut(s)	826
AluBI	AGCT	7 cut(s)	152, 408, 499, 606, 818, 1127, 1133
AluI	AGCT	7 cut(s)	152, 408, 499, 606, 818, 1127, 1133
Alw21I	GWGCWC	2 cut(s)	418, 587
Alw26I	GTCTC	2 cut(s)	626, 783
Alw44I	GTGCAC	2 cut(s)	414, 583
AoxI	GGCC	1 cut(s)	227
ApaLI	GTGCAC	2 cut(s)	414, 583
ApeKI	GCWGC	3 cut(s)	289, 445, 1043
ApoI	RAATTY	1 cut(s)	368
AspLEI	GCGC	1 cut(s)	843
AspS9I	GGNCC	1 cut(s)	227
AsuHPI	GGTGA	4 cut(s)	67, 431, 748, 1077
BaeGI	GKGCMC	2 cut(s)	418, 587
BaeI	ACNNNNGTAYC	2 cut(s)	1098, 1131
BbsI	GAAGAC	3 cut(s)	12, 18, 422
Bbv12I	GWGCWC	2 cut(s)	418, 587
BbvI	GCAGC	3 cut(s)	301, 432, 1030
BccI	CCATC	4 cut(s)	76, 238, 253, 799
BceAI	ACGGC	2 cut(s)	529, 719
BciT130I	CCWGG	1 cut(s)	828
BciVI	GTATCC	2 cut(s)	679, 970
BcoDI	GTCTC	2 cut(s)	626, 783
BcuI	ACTAGT	1 cut(s)	1109
BfaI	CTAG	2 cut(s)	815, 1110
BfuAI	ACCTGC	1 cut(s)	450
BfuI	GTATCC	2 cut(s)	679, 970
BglII	AGATCT	1 cut(s)	811
BisI	GCNGC	4 cut(s)	290, 446, 901, 1044
BlsI	GCNGC	4 cut(s)	291, 447, 902, 1045
Bme1390I	CCNGG	1 cut(s)	828
BmgT120I	GGNCC	1 cut(s)	227
BmrFI	CCNGG	1 cut(s)	828
BmrI	ACTGGG	1 cut(s)	234
BmsI	GCATC	2 cut(s)	281, 457
BmuI	ACTGGG	1 cut(s)	234
BpiI	GAAGAC	3 cut(s)	12, 18, 422
BplI	GAGNNNNNCTC	2 cut(s)	167, 199
BpuEI	CTTGAG	2 cut(s)	132, 199
BsaI	GGTCTC	1 cut(s)	783
BsaJI	CCNNGG	3 cut(s)	760, 826, 1119
Bsc4I	CCNNNNNNNGG	1 cut(s)	833
Bse1I	ACTGG	1 cut(s)	229
Bse3DI	GCAATG	1 cut(s)	304
BseBI	CCWGG	1 cut(s)	828
BseDI	CCNNGG	3 cut(s)	760, 826, 1119
BseGI	GGATG	4 cut(s)	35, 448, 538, 802
BseLI	CCNNNNNNNGG	1 cut(s)	833
BseMI	GCAATG	1 cut(s)	304
BseMII	CTCAG	1 cut(s)	165
BseNI	ACTGG	1 cut(s)	229
BseSI	GKGCMC	2 cut(s)	418, 587
BseXI	GCAGC	3 cut(s)	301, 432, 1030
BshFI	GGCC	1 cut(s)	229
BsiHKAI	GWGCWC	2 cut(s)	418, 587
BslI	CCNNNNNNNGG	1 cut(s)	833
BsmAI	GTCTC	2 cut(s)	626, 783
BsmBI	CGTCTC	1 cut(s)	626
BsnI	GGCC	1 cut(s)	229
Bso31I	GGTCTC	1 cut(s)	783
Bsp1286I	GDGCHC	2 cut(s)	418, 587
Bsp143I	GATC	1 cut(s)	811
Bsp19I	CCATGG	1 cut(s)	1119
BspACI	CCGC	2 cut(s)	469, 901
BspANI	GGCC	1 cut(s)	229
BspCNI	CTCAG	1 cut(s)	166
BspHI	TCATGA	1 cut(s)	871
BspMI	ACCTGC	1 cut(s)	450
BspTNI	GGTCTC	1 cut(s)	783
BsrDI	GCAATG	1 cut(s)	304
BsrI	ACTGG	1 cut(s)	229
BssECI	CCNNGG	3 cut(s)	760, 826, 1119
BssMI	GATC	1 cut(s)	811
BssT1I	CCWWGG	2 cut(s)	760, 1119
Bst2UI	CCWGG	1 cut(s)	828
Bst4CI	ACNGT	3 cut(s)	55, 727, 1024
BstC8I	GCNNGC	2 cut(s)	660, 898
BstDEI	CTNAG	2 cut(s)	174, 425
BstDSI	CCRYGG	1 cut(s)	1119
BstF5I	GGATG	4 cut(s)	35, 448, 538, 802
BstHHI	GCGC	1 cut(s)	843
BstKTI	GATC	1 cut(s)	814
BstMAI	GTCTC	2 cut(s)	626, 783
BstMBI	GATC	1 cut(s)	811
BstMWI	GCNNNNNNNGC	4 cut(s)	1040, 1049, 1058, 1124
BstNI	CCWGG	1 cut(s)	828
BstNSI	RCATGY	1 cut(s)	737
BstSCI	CCNGG	1 cut(s)	826
BstSLI	GKGCMC	2 cut(s)	418, 587
BstV1I	GCAGC	3 cut(s)	301, 432, 1030
BstV2I	GAAGAC	3 cut(s)	12, 18, 422
BstX2I	RGATCY	1 cut(s)	811
BstYI	RGATCY	1 cut(s)	811
BsuI	GTATCC	2 cut(s)	679, 970
BsuRI	GGCC	1 cut(s)	229
BtgI	CCRYGG	1 cut(s)	1119
BtsCI	GGATG	4 cut(s)	35, 448, 538, 802
BveI	ACCTGC	1 cut(s)	450
Cac8I	GCNNGC	2 cut(s)	660, 898
CciI	TCATGA	1 cut(s)	871
CfoI	GCGC	1 cut(s)	843
Cfr13I	GGNCC	1 cut(s)	227
CseI	GACGC	1 cut(s)	281
Csp6I	GTAC	1 cut(s)	509
CviQI	GTAC	1 cut(s)	509
DdeI	CTNAG	2 cut(s)	174, 425
DpnI	GATC	1 cut(s)	813
DpnII	GATC	1 cut(s)	811
Eco130I	CCWWGG	2 cut(s)	760, 1119
Eco31I	GGTCTC	1 cut(s)	783
Eco57I	CTGAAG	2 cut(s)	1002, 1149
EcoRII	CCWGG	1 cut(s)	826
EcoT14I	CCWWGG	2 cut(s)	760, 1119
EcoT22I	ATGCAT	1 cut(s)	718
ErhI	CCWWGG	2 cut(s)	760, 1119
Esp3I	CGTCTC	1 cut(s)	626
Fnu4HI	GCNGC	4 cut(s)	290, 446, 901, 1044
FokI	GGATG	4 cut(s)	22, 435, 545, 809
Fsp4HI	GCNGC	4 cut(s)	290, 446, 901, 1044
FspBI	CTAG	2 cut(s)	815, 1110
GlaI	GCGC	1 cut(s)	842
GluI	GCNGC	4 cut(s)	290, 446, 901, 1044
HaeIII	GGCC	1 cut(s)	229
HgaI	GACGC	1 cut(s)	281
HhaI	GCGC	1 cut(s)	843
Hin6I	GCGC	1 cut(s)	841
HinP1I	GCGC	1 cut(s)	841
HincII	GTYRAC	1 cut(s)	739
HindII	GTYRAC	1 cut(s)	739
HindIII	AAGCTT	2 cut(s)	150, 497
HinfI	GANTC	3 cut(s)	32, 304, 917
HpaI	GTTAAC	1 cut(s)	739
HphI	GGTGA	4 cut(s)	67, 431, 748, 1077
Hpy166II	GTNNAC	4 cut(s)	416, 585, 620, 739
Hpy188I	TCNGA	4 cut(s)	175, 353, 401, 916
Hpy188III	TCNNGA	3 cut(s)	77, 452, 872
Hpy8I	GTNNAC	4 cut(s)	416, 585, 620, 739
Hpy99I	CGWCG	1 cut(s)	297
HpyAV	CCTTC	2 cut(s)	126, 319
HpyCH4III	ACNGT	3 cut(s)	55, 727, 1024
HpyCH4IV	ACGT	2 cut(s)	622, 853
HpyCH4V	TGCA	8 cut(s)	22, 272, 374, 416, 448, 484, 585, 716
HpyF10VI	GCNNNNNNNGC	4 cut(s)	1040, 1049, 1058, 1124
HpyF3I	CTNAG	2 cut(s)	174, 425
HpySE526I	ACGT	2 cut(s)	622, 853
HspAI	GCGC	1 cut(s)	841
KspAI	GTTAAC	1 cut(s)	739
Kzo9I	GATC	1 cut(s)	811
LmnI	GCTCC	4 cut(s)	133, 259, 579, 603
Lsp1109I	GCAGC	3 cut(s)	301, 432, 1030
LweI	GCATC	2 cut(s)	281, 457
MaeI	CTAG	2 cut(s)	815, 1110
MaeII	ACGT	2 cut(s)	622, 853
MaeIII	GTNAC	7 cut(s)	386, 546, 556, 623, 754, 952, 1083
MalI	GATC	1 cut(s)	813
MboI	GATC	1 cut(s)	811
MflI	RGATCY	1 cut(s)	811
MhlI	GDGCHC	2 cut(s)	418, 587
MluCI	AATT	3 cut(s)	368, 479, 490
MlyI	GAGTC	1 cut(s)	41
MnlI	CCTC	6 cut(s)	142, 181, 217, 354, 523, 604
Mph1103I	ATGCAT	1 cut(s)	718
MseI	TTAA	6 cut(s)	540, 719, 738, 882, 1026, 1071
MslI	CAYNNNNRTG	1 cut(s)	522
MspR9I	CCNGG	1 cut(s)	828
MvaI	CCWGG	1 cut(s)	828
MwoI	GCNNNNNNNGC	4 cut(s)	1040, 1049, 1058, 1124
NcoI	CCATGG	1 cut(s)	1119
NdeII	GATC	1 cut(s)	811
NmuCI	GTSAC	3 cut(s)	386, 754, 1083
NsiI	ATGCAT	1 cut(s)	718
NspI	RCATGY	1 cut(s)	737
PagI	TCATGA	1 cut(s)	871
PaqCI	CACCTGC	1 cut(s)	450
PciI	ACATGT	1 cut(s)	733
PfeI	GAWTC	2 cut(s)	304, 917
PkrI	GCNGC	4 cut(s)	291, 447, 902, 1045
PleI	GAGTC	1 cut(s)	40
PpsI	GAGTC	1 cut(s)	40
PscI	ACATGT	1 cut(s)	733
Psp1406I	AACGTT	1 cut(s)	853
Psp6I	CCWGG	1 cut(s)	826
PspGI	CCWGG	1 cut(s)	826
PspPI	GGNCC	1 cut(s)	227
PsuI	RGATCY	1 cut(s)	811
RsaI	GTAC	1 cut(s)	510
RsaNI	GTAC	1 cut(s)	509
RseI	CAYNNNNRTG	1 cut(s)	522
SaqAI	TTAA	6 cut(s)	540, 719, 738, 882, 1026, 1071
SatI	GCNGC	4 cut(s)	290, 446, 901, 1044
Sau3AI	GATC	1 cut(s)	811
Sau96I	GGNCC	1 cut(s)	227
SchI	GAGTC	1 cut(s)	41
ScrFI	CCNGG	1 cut(s)	828
SduI	GDGCHC	2 cut(s)	418, 587
SfaNI	GCATC	2 cut(s)	281, 457
SmiMI	CAYNNNNRTG	1 cut(s)	522
SmlI	CTYRAG	2 cut(s)	147, 214
SmoI	CTYRAG	2 cut(s)	147, 214
SpeI	ACTAGT	1 cut(s)	1109
Sse9I	AATT	3 cut(s)	368, 479, 490
SsiI	CCGC	2 cut(s)	469, 901
SspMI	CTAG	2 cut(s)	815, 1110
StyD4I	CCNGG	1 cut(s)	826
StyI	CCWWGG	2 cut(s)	760, 1119
TaaI	ACNGT	3 cut(s)	55, 727, 1024
TaiI	ACGT	2 cut(s)	625, 856
TaqI	TCGA	2 cut(s)	730, 803
TasI	AATT	3 cut(s)	368, 479, 490
TatI	WGTACW	1 cut(s)	508
TauI	GCSGC	1 cut(s)	903
TfiI	GAWTC	2 cut(s)	304, 917
Tru1I	TTAA	6 cut(s)	540, 719, 738, 882, 1026, 1071
Tru9I	TTAA	6 cut(s)	540, 719, 738, 882, 1026, 1071
TseFI	GTSAC	3 cut(s)	386, 754, 1083
TseI	GCWGC	3 cut(s)	289, 445, 1043
Tsp45I	GTSAC	3 cut(s)	386, 754, 1083
TspDTI	ATGAA	3 cut(s)	663, 860, 888
VneI	GTGCAC	2 cut(s)	414, 583
XapI	RAATTY	1 cut(s)	368
XceI	RCATGY	1 cut(s)	737
XspI	CTAG	2 cut(s)	815, 1110
Zsp2I	ATGCAT	1 cut(s)	718

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