Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr4

Orthogroup ID

OG0004198

Physical Location & Seq

Genomic Coordinates Reverse (-)

7100959 .. 7104524

Gene Structure 3566 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw4G003560.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1044 bp

ATGACAGCCCTAATAAAAAGAGCCGAAGATCAAAGCCAGATGCAGCTCATCGAACGCGAAGACATCGACGATGAAGACGACCTCTTCGAAGTGATCGATAAGTTGATTGCTCAGGGAATCAATGCCGGAGATGTTAAGAAGCTTCAGGACGCAGGGATCTACACCTGCAATGGTTTGATGATGCACACCAAGAAGAACTTGACCGGAATTAAAGGCTTATCTGAGGCCAAAGTTGATAAGATTTGTGAAGCTGCTGAGAAGATAGTGAACTTTGGATATATTACAGGGAGTGATGCTCTAACCAGAAGGAAGTCTGTGATTCGCATTACAACTGGGAGCCAAGCACTTGATGAACTGTTAGGCGGTGGGGTTGAAACTCTAGCAATCACAGAAGCCTTTGGGGAATTTAGGTCTGGGAAAACACAGCTTGCACACACACTCTGCGTAACTACACAGCTTCCTACTAACATGCATGGAGGGAATGGAAAGGTTGCTTACATTGATACTGAGGGAACTTTCCGGCCTGAACGAATAATACCTATAGCTGAAAGATTTGGCTTGGACCCAGGAGCTGTCCTCGATAATATTGTTTATGCTCGTGCTTTTACATATGAGCATCAGTATAATCTGCTTCTTGGTCTAGCAGCAAAAATGGCTGAAGAGCCATTCAGACTTCTGATTGTGGACTCAGTGATTGCTCTATTTCGTGTTGATTTTACTGGGAGAGGAGAGCTTGCAGATCGCCAGCAAAAACTTGCACAGATGCTTTCCCGATTAATAAAGATTGCTGAGGAATTCAATGTCGCTGTCTATATGACCAACCAAGTGATAGCTGACCCCGGTGGTGGAGTGTTCATATCTGATCCAAAGAAACCCGCAGGAGGTCATGTGCTTGCCCATGCAGCAACCATAAGGCTCATGTTTAGAAAAGGCAAAGGGGAACAGCGTGTCTGCAAGGTGTTTGATGCCCCAAACCTGCCTGAGGCTGAAGCAATATCCTTCTCATTTATAACTGCAGGAGGCATTGCAGATGCAAAGGACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000150 GO:0000217 GO:0000228 GO:0000280 GO:0000400 GO:0000724 GO:0000725 GO:0000730 GO:0000793 GO:0000794 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003697 GO:0003824 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005694 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006312 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007049 GO:0007059 GO:0007127 GO:0007129 GO:0007131 GO:0008094 GO:0008150 GO:0008152 GO:0009314 GO:0009628 GO:0009987 GO:0010212 GO:0016043 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022402 GO:0022414 GO:0022607 GO:0031974 GO:0031981 GO:0033554 GO:0034622 GO:0034641 GO:0035825 GO:0042148 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0045003 GO:0045132 GO:0045143 GO:0046483 GO:0048285 GO:0050896 GO:0051026 GO:0051276 GO:0051321 GO:0051716 GO:0061982 GO:0065003 GO:0065004 GO:0070013 GO:0070192 GO:0071704 GO:0071824 GO:0071840 GO:0090304 GO:0090735 GO:0097159 GO:0098813 GO:0140013 GO:0140097 GO:1901360 GO:1901363 GO:1903046

KEGG Pathways

Metabolic & Signaling

ko04113 map04113

Pfam Domains

Protein Families

Rad51

Protein Analysis

347

Amino Acids

37.85

Weight (kDa)

5.54

Isoelectric Point (pI)

23.59

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rad51	PF08423	102 - 344	2e-118	Rad51
RecA_N	PF00154	103 - 311	1.3e-10	RecA N-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

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Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Orthologous Genes (Group: OG0004198)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G22880 AT3G22880
fragaria_vesca	FvH4_4g03620 FvH4_4g03620 FvH4_4g03740 FvH4_4g03740 FvH4_4g03740
malus_domestica	MD16G1200300.v1.1
prunus_persica	Prupe.1G022500_v2.0.a1 Prupe.1G022500_v2.0.a1
pyrus_communis	pycom16g16950
rosa_chinensis	RchiOBHm_Chr4g0392991 RchiOBHm_Chr4g0393441 RchiOBHm_Chr4g0393481
rosa_laevigata	RLG00000009753 RLG00000009756 RLG00000009776 RLG00000010122
rosa_multiflora	Rmu_sc0008339.1_g000015 Rmu_sc0008931.1_g000008 Rmu_sc0012965.1_g000002
rosa_roxburghii	Rroxscaffold_5G00338100 Rroxscaffold_5G00338400
rosa_rugosa	Rorug03G0309300 Rorug03G0310500 Rorug04G0001200 Rorug04G0001300 Rorug04G0001700 Rorug04G0003100
rosa_samantha	Rh4CG016900
rosa_wichuraiana	Rw4G003560 Rw4G003710 Rw4G003740

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	1010
AarI	CACCTGC	1 cut(s)	173
Acc36I	ACCTGC	2 cut(s)	173, 984
AccII	CGCG	1 cut(s)	57
AciI	CCGC	2 cut(s)	363, 876
AclWI	GGATC	2 cut(s)	164, 857
AcsI	RAATTY	2 cut(s)	404, 794
AcuI	CTGAAG	3 cut(s)	128, 678, 1008
AfiI	CCNNNNNNNGG	3 cut(s)	845, 881, 982
AgsI	TTSAA	2 cut(s)	374, 799
AjnI	CCWGG	1 cut(s)	565
AluBI	AGCT	9 cut(s)	46, 142, 251, 427, 457, 545, 572, 733, 833
AluI	AGCT	9 cut(s)	46, 142, 251, 427, 457, 545, 572, 733, 833
AlwI	GGATC	2 cut(s)	164, 857
AlwNI	CAGNNNCTG	1 cut(s)	572
AoxI	GGCC	2 cut(s)	225, 521
ApeKI	GCWGC	4 cut(s)	43, 251, 644, 902
ApoI	RAATTY	2 cut(s)	404, 794
ArsI	GACNNNNNNTTYG	2 cut(s)	68, 100
AseI	ATTAAT	1 cut(s)	776
AspS9I	GGNCC	1 cut(s)	562
AsuC2I	CCSGG	1 cut(s)	840
AsuII	TTCGAA	1 cut(s)	87
AvaII	GGWCC	1 cut(s)	562
AxyI	CCTNAGG	1 cut(s)	981
BauI	CACGAG	1 cut(s)	597
BbsI	GAAGAC	2 cut(s)	66, 81
BbvCI	CCTCAGC	1 cut(s)	789
BbvI	GCAGC	4 cut(s)	55, 238, 656, 914
BciT130I	CCWGG	1 cut(s)	567
BcnI	CCSGG	1 cut(s)	840
BfaI	CTAG	2 cut(s)	380, 641
BfmI	CTRYAG	2 cut(s)	540, 1014
BfuAI	ACCTGC	2 cut(s)	173, 984
BisI	GCNGC	4 cut(s)	44, 252, 645, 903
BlsI	GCNGC	4 cut(s)	45, 253, 646, 904
Bme1390I	CCNGG	2 cut(s)	567, 840
Bme18I	GGWCC	1 cut(s)	562
BmgT120I	GGNCC	1 cut(s)	562
BmiI	GGNNCC	2 cut(s)	338, 564
BmrFI	CCNGG	2 cut(s)	567, 840
BmrI	ACTGGG	2 cut(s)	342, 729
BmsI	GCATC	7 cut(s)	30, 171, 283, 625, 753, 955, 1021
BmuI	ACTGGG	2 cut(s)	342, 729
BpiI	GAAGAC	2 cut(s)	66, 81
BplI	GAGNNNNNCTC	4 cut(s)	280, 312, 561, 593
Bpu10I	CCTNAGC	2 cut(s)	111, 789
Bpu14I	TTCGAA	1 cut(s)	87
BpuMI	CCSGG	1 cut(s)	840
Bsa29I	ATCGAT	1 cut(s)	96
BsaJI	CCNNGG	2 cut(s)	565, 838
BsaWI	WCCGGW	1 cut(s)	203
BsaXI	ACNNNNNCTCC	2 cut(s)	873, 903
Bsc4I	CCNNNNNNNGG	3 cut(s)	845, 881, 982
Bse1I	ACTGG	2 cut(s)	337, 724
Bse21I	CCTNAGG	1 cut(s)	981
Bse3DI	GCAATG	2 cut(s)	175, 1023
BseBI	CCWGG	1 cut(s)	567
BseCI	ATCGAT	1 cut(s)	96
BseDI	CCNNGG	2 cut(s)	565, 838
BseLI	CCNNNNNNNGG	3 cut(s)	845, 881, 982
BseMI	GCAATG	2 cut(s)	175, 1023
BseMII	CTCAG	7 cut(s)	125, 213, 246, 498, 702, 780, 972
BseNI	ACTGG	2 cut(s)	337, 724
BseRI	GAGGAG	1 cut(s)	741
BseXI	GCAGC	4 cut(s)	55, 238, 656, 914
Bsh1236I	CGCG	1 cut(s)	57
BshFI	GGCC	2 cut(s)	227, 523
BshVI	ATCGAT	1 cut(s)	96
BsiSI	CCGG	4 cut(s)	126, 204, 520, 840
BslI	CCNNNNNNNGG	3 cut(s)	845, 881, 982
BsnI	GGCC	2 cut(s)	227, 523
Bsp119I	TTCGAA	1 cut(s)	87
Bsp143I	GATC	5 cut(s)	28, 93, 156, 739, 862
BspACI	CCGC	2 cut(s)	363, 876
BspANI	GGCC	2 cut(s)	227, 523
BspCNI	CTCAG	7 cut(s)	124, 214, 247, 499, 701, 781, 973
BspDI	ATCGAT	1 cut(s)	96
BspFNI	CGCG	1 cut(s)	57
BspLI	GGNNCC	2 cut(s)	338, 564
BspMAI	CTGCAG	1 cut(s)	1018
BspMI	ACCTGC	2 cut(s)	173, 984
BspPI	GGATC	2 cut(s)	164, 857
BspQI	GCTCTTC	1 cut(s)	654
BspT104I	TTCGAA	1 cut(s)	87
BsrDI	GCAATG	2 cut(s)	175, 1023
BsrI	ACTGG	2 cut(s)	337, 724
BssECI	CCNNGG	2 cut(s)	565, 838
BssMI	GATC	5 cut(s)	28, 93, 156, 739, 862
BssSI	CACGAG	1 cut(s)	597
Bst2BI	CACGAG	1 cut(s)	597
Bst2UI	CCWGG	1 cut(s)	567
Bst4CI	ACNGT	1 cut(s)	357
Bst6I	CTCTTC	2 cut(s)	89, 654
BstBI	TTCGAA	1 cut(s)	87
BstC8I	GCNNGC	4 cut(s)	429, 735, 746, 894
BstDEI	CTNAG	7 cut(s)	111, 222, 255, 507, 688, 789, 981
BstENI	CCTNNNNNAGG	1 cut(s)	980
BstFNI	CGCG	1 cut(s)	57
BstKTI	GATC	5 cut(s)	31, 96, 159, 742, 865
BstMBI	GATC	5 cut(s)	28, 93, 156, 739, 862
BstMWI	GCNNNNNNNGC	2 cut(s)	653, 902
BstNI	CCWGG	1 cut(s)	567
BstNSI	RCATGY	1 cut(s)	472
BstSCI	CCNGG	2 cut(s)	565, 838
BstSFI	CTRYAG	2 cut(s)	540, 1014
BstUI	CGCG	1 cut(s)	57
BstV1I	GCAGC	4 cut(s)	55, 238, 656, 914
BstV2I	GAAGAC	2 cut(s)	66, 81
BstX2I	RGATCY	1 cut(s)	156
BstYI	RGATCY	1 cut(s)	156
Bsu15I	ATCGAT	1 cut(s)	96
Bsu36I	CCTNAGG	1 cut(s)	981
BsuRI	GGCC	2 cut(s)	227, 523
BsuTUI	ATCGAT	1 cut(s)	96
BtsIMutI	CAGTG	1 cut(s)	696
BveI	ACCTGC	2 cut(s)	173, 984
Cac8I	GCNNGC	4 cut(s)	429, 735, 746, 894
CaiI	CAGNNNCTG	1 cut(s)	572
Cfr13I	GGNCC	1 cut(s)	562
ClaI	ATCGAT	1 cut(s)	96
CseI	GACGC	1 cut(s)	158
CviAII	CATG	5 cut(s)	469, 473, 887, 899, 919
DdeI	CTNAG	7 cut(s)	111, 222, 255, 507, 688, 789, 981
DpnI	GATC	5 cut(s)	30, 95, 158, 741, 864
DpnII	GATC	5 cut(s)	28, 93, 156, 739, 862
Eam1104I	CTCTTC	2 cut(s)	89, 654
EarI	CTCTTC	2 cut(s)	89, 654
Eco47I	GGWCC	1 cut(s)	562
Eco57I	CTGAAG	3 cut(s)	128, 678, 1008
Eco81I	CCTNAGG	1 cut(s)	981
EcoNI	CCTNNNNNAGG	1 cut(s)	980
EcoRI	GAATTC	1 cut(s)	794
EcoRII	CCWGG	1 cut(s)	565
EcoT22I	ATGCAT	1 cut(s)	474
FaeI	CATG	5 cut(s)	472, 476, 890, 902, 922
FalI	AAGNNNNNCTT	2 cut(s)	182, 214
FatI	CATG	5 cut(s)	468, 472, 886, 898, 918
FauI	CCCGC	1 cut(s)	883
FauNDI	CATATG	1 cut(s)	610
Fnu4HI	GCNGC	4 cut(s)	44, 252, 645, 903
Fsp4HI	GCNGC	4 cut(s)	44, 252, 645, 903
FspBI	CTAG	2 cut(s)	380, 641
GluI	GCNGC	4 cut(s)	44, 252, 645, 903
HaeIII	GGCC	2 cut(s)	227, 523
HapII	CCGG	4 cut(s)	126, 204, 520, 840
HgaI	GACGC	1 cut(s)	158
Hin1II	CATG	5 cut(s)	472, 476, 890, 902, 922
HindIII	AAGCTT	1 cut(s)	140
HinfI	GANTC	3 cut(s)	117, 319, 686
HpaII	CCGG	4 cut(s)	126, 204, 520, 840
Hpy166II	GTNNAC	2 cut(s)	268, 685
Hpy188I	TCNGA	4 cut(s)	223, 671, 678, 862
Hpy188III	TCNNGA	2 cut(s)	146, 771
Hpy8I	GTNNAC	2 cut(s)	268, 685
Hpy99I	CGWCG	1 cut(s)	71
HpyAV	CCTTC	2 cut(s)	300, 1009
HpyCH4III	ACNGT	1 cut(s)	357
HpyF10VI	GCNNNNNNNGC	2 cut(s)	653, 902
HpyF3I	CTNAG	7 cut(s)	111, 222, 255, 507, 688, 789, 981
Hsp92II	CATG	5 cut(s)	472, 476, 890, 902, 922
Kzo9I	GATC	5 cut(s)	28, 93, 156, 739, 862
LguI	GCTCTTC	1 cut(s)	654
LmnI	GCTCC	2 cut(s)	336, 569
Lsp1109I	GCAGC	4 cut(s)	55, 238, 656, 914
LweI	GCATC	7 cut(s)	30, 171, 283, 625, 753, 955, 1021
MaeI	CTAG	2 cut(s)	380, 641
MaeIII	GTNAC	1 cut(s)	445
MalI	GATC	5 cut(s)	30, 95, 158, 741, 864
MboI	GATC	5 cut(s)	28, 93, 156, 739, 862
MboII	GAAGA	7 cut(s)	38, 71, 76, 86, 205, 271, 671
MflI	RGATCY	1 cut(s)	156
MluCI	AATT	3 cut(s)	207, 404, 794
MlyI	GAGTC	1 cut(s)	680
Mph1103I	ATGCAT	1 cut(s)	474
MseI	TTAA	3 cut(s)	135, 210, 776
MspI	CCGG	4 cut(s)	126, 204, 520, 840
MspR9I	CCNGG	2 cut(s)	567, 840
MvaI	CCWGG	1 cut(s)	567
MvnI	CGCG	1 cut(s)	57
MwoI	GCNNNNNNNGC	2 cut(s)	653, 902
NciI	CCSGG	1 cut(s)	840
NdeI	CATATG	1 cut(s)	610
NdeII	GATC	5 cut(s)	28, 93, 156, 739, 862
NlaIII	CATG	5 cut(s)	472, 476, 890, 902, 922
NlaIV	GGNNCC	2 cut(s)	338, 564
NsiI	ATGCAT	1 cut(s)	474
NspI	RCATGY	1 cut(s)	472
NspV	TTCGAA	1 cut(s)	87
PaqCI	CACCTGC	1 cut(s)	173
PciSI	GCTCTTC	1 cut(s)	654
PcsI	WCGNNNNNNNCGW	3 cut(s)	75, 84, 93
PfeI	GAWTC	2 cut(s)	117, 319
PkrI	GCNGC	4 cut(s)	45, 253, 646, 904
PleI	GAGTC	1 cut(s)	680
PpsI	GAGTC	1 cut(s)	680
PshBI	ATTAAT	1 cut(s)	776
PsiI	TTATAA	1 cut(s)	1010
Psp6I	CCWGG	1 cut(s)	565
PspGI	CCWGG	1 cut(s)	565
PspN4I	GGNNCC	2 cut(s)	338, 564
PspPI	GGNCC	1 cut(s)	562
PsrI	GAACNNNNNNTAC	2 cut(s)	519, 551
PstI	CTGCAG	1 cut(s)	1018
PstNI	CAGNNNCTG	1 cut(s)	572
PsuI	RGATCY	1 cut(s)	156
SapI	GCTCTTC	1 cut(s)	654
SaqAI	TTAA	3 cut(s)	135, 210, 776
SatI	GCNGC	4 cut(s)	44, 252, 645, 903
Sau3AI	GATC	5 cut(s)	28, 93, 156, 739, 862
Sau96I	GGNCC	1 cut(s)	562
SchI	GAGTC	1 cut(s)	680
ScrFI	CCNGG	2 cut(s)	567, 840
SfaNI	GCATC	7 cut(s)	30, 171, 283, 625, 753, 955, 1021
SfcI	CTRYAG	2 cut(s)	540, 1014
SfuI	TTCGAA	1 cut(s)	87
SinI	GGWCC	1 cut(s)	562
Sse9I	AATT	3 cut(s)	207, 404, 794
SsiI	CCGC	2 cut(s)	363, 876
SspI	AATATT	1 cut(s)	586
SspMI	CTAG	2 cut(s)	380, 641
StyD4I	CCNGG	2 cut(s)	565, 838
TaaI	ACNGT	1 cut(s)	357
TaqI	TCGA	5 cut(s)	51, 66, 87, 96, 579
TasI	AATT	3 cut(s)	207, 404, 794
TfiI	GAWTC	2 cut(s)	117, 319
Tru1I	TTAA	3 cut(s)	135, 210, 776
Tru9I	TTAA	3 cut(s)	135, 210, 776
TscAI	CASTG	1 cut(s)	696
TseI	GCWGC	4 cut(s)	43, 251, 644, 902
TspDTI	ATGAA	3 cut(s)	87, 366, 844
TspRI	CASTG	1 cut(s)	696
VpaK11BI	GGWCC	1 cut(s)	562
VspI	ATTAAT	1 cut(s)	776
XagI	CCTNNNNNAGG	1 cut(s)	980
XapI	RAATTY	2 cut(s)	404, 794
XceI	RCATGY	1 cut(s)	472
XspI	CTAG	2 cut(s)	380, 641
Zsp2I	ATGCAT	1 cut(s)	474

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