Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0003253

Physical Location & Seq

Genomic Coordinates Reverse (-)

16164985 .. 16166498

Gene Structure 1514 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG105100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 867 bp

ATGAACCCCTCAAACCTCCTCCCCAGCCAGAATCTAACGATGGGCTGTCCAGTCCTGGACCGCTGCCTCGGCGGCGGAATACCCTGCAACTCCCTCACGGAGCTCGTAGCCGAGAGCAGTTGCGGCAAGACCCAATTCTGCCTCCAACTCACTCTCTTCGCTCAGCTCCCTCCTTCCCACGGCGGCCTCTCCGCCTCCTCTCTTTACCTCCACACAGAATTCCCTTTCCCCTTTCGCCGCCTCCGCCACCTCTCCCACTCCTTCCGCTCCTCACACGCGAATCTTATCCTCTCCAACCCCTATGAAGATGTGTACGTTCAAGCTGTACACGATGCACGCCACCTGCTCGACATAATGCCCAAGATAGAGTGCTTTGTTGCGAGCAGGAAAACCCGGCTGCCTGTGAGGCTAATTGTGATTGATTCCATTGCCGCACTATTTCGCAGCGAATTCGGCAACAACCCTTTGGATCTTAAGCGGAGGTCCTTCCTGTTCTTCGAGATTTCCGGGATGCTGAAGTTGTTGGCGAGAAAGTACAGCTTGGCGGTGGTGGTGACGAACCAGGTGGTTGATTTTATGGGGGAAGTAGAGGGGATAAGTGGGATGAGAGTTGGGAATTTGAGCTCCTTGCATTCATCCGGAAGACGGGTTTGTCCTGCTTTGGGATTAGCTTGGTCACATTGCGTAAATTCGAGGTTGTTCTTGTCTAGAAATGAGGAGATTGTTGGGAGAGAAAATGATGGGTTGGATGATGATCTGTGCAGGCAAACAAGAAGGCGACTTGATGTTGTTTTTGCTCCTCATTTGCCGCCATCATCTTGTGAGTTTGTAATCACAAAGCAAGGGGTGTTTGGAGTTGACAGATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000150 GO:0000217 GO:0000280 GO:0000400 GO:0000707 GO:0000724 GO:0000725 GO:0000730 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003697 GO:0003824 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005657 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:0007127 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:0032991 GO:0033061 GO:0033063 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:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044464 GO:0045003 GO:0046483 GO:0048285 GO:0050896 GO:0051321 GO:0051716 GO:0061982 GO:0065003 GO:0065004 GO:0071704 GO:0071824 GO:0071840 GO:0090304 GO:0090735 GO:0097159 GO:0140013 GO:0140097 GO:1901360 GO:1901363 GO:1903046

KEGG Pathways

Metabolic & Signaling

ko03440 map03440

Pfam Domains

Protein Families

Rad51

Protein Analysis

288

Amino Acids

32.08

Weight (kDa)

8.73

Isoelectric Point (pI)

57.23

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rad51	PF08423	11 - 191	4.9e-26	Rad51

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: OG0003253)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G57450 AT5G57450
fragaria_vesca	FvH4_4g08250 FvH4_4g08251
malus_domestica	MD06G1167000.v1.1 MD14G1172600.v1.1
prunus_persica	Prupe.1G061700_v2.0.a1
pyrus_communis	pycom06g14950
rosa_chinensis	RchiOBHm_Chr4g0402491 RchiOBHm_Chr4g0402521
rosa_laevigata	RLG00000009070 RLG00000009076 RLG00000009078 RLG00000009079
rosa_multiflora	Rmu_sc0000727.1_g000022 Rmu_ssc0000330.1_g000031 Rmu_ssc0000330.1_g000046 Rmu_ssc0000330.1_g000047
rosa_roxburghii	Rroxscaffold_2G00117490 Rroxscaffold_5G00347180
rosa_rugosa	Rorug04G0035800 Rorug04G0035900 Rorug04G0036000.1 Rorug04G0036100
rosa_samantha	Rh4AG113100 Rh4AG113300 Rh4AG113500 Rh4AG113800 Rh4AG114000 Rh4BG105700 Rh4BG105900 Rh4CG120200 Rh4DG105100 Rh5BG409500 Rh5CG434300
rosa_wichuraiana	Rw4G009080 Rw5G037440

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	351
AasI	GACNNNNNNGTC	1 cut(s)	651
Acc36I	ACCTGC	1 cut(s)	351
AccBSI	CCGCTC	1 cut(s)	267
AccII	CGCG	1 cut(s)	278
AccIII	TCCGGA	1 cut(s)	638
AclWI	GGATC	1 cut(s)	477
AcsI	RAATTY	4 cut(s)	218, 449, 616, 688
AcuI	CTGAAG	1 cut(s)	536
AfaI	GTAC	3 cut(s)	314, 327, 536
AfiI	CCNNNNNNNGG	3 cut(s)	179, 645, 662
AflII	CTTAAG	1 cut(s)	473
AgsI	TTSAA	1 cut(s)	320
AjnI	CCWGG	2 cut(s)	54, 561
AluBI	AGCT	6 cut(s)	103, 166, 323, 540, 624, 671
AluI	AGCT	6 cut(s)	103, 166, 323, 540, 624, 671
Alw21I	GWGCWC	2 cut(s)	105, 626
AlwI	GGATC	1 cut(s)	477
Aor13HI	TCCGGA	1 cut(s)	638
AoxI	GGCC	1 cut(s)	184
ApeKI	GCWGC	3 cut(s)	63, 397, 444
ApoI	RAATTY	4 cut(s)	218, 449, 616, 688
AspS9I	GGNCC	2 cut(s)	58, 483
AsuC2I	CCSGG	2 cut(s)	394, 508
AsuHPI	GGTGA	1 cut(s)	565
AvaII	GGWCC	2 cut(s)	58, 483
BanII	GRGCYC	2 cut(s)	105, 626
BbsI	GAAGAC	1 cut(s)	649
Bbv12I	GWGCWC	2 cut(s)	105, 626
BbvI	GCAGC	3 cut(s)	50, 384, 456
BccI	CCATC	3 cut(s)	34, 734, 820
BceAI	ACGGC	1 cut(s)	196
BcgI	CGANNNNNNTGC	2 cut(s)	433, 467
BciT130I	CCWGG	2 cut(s)	56, 563
BcnI	CCSGG	2 cut(s)	394, 508
BfaI	CTAG	1 cut(s)	708
BfrI	CTTAAG	1 cut(s)	473
BfuAI	ACCTGC	1 cut(s)	351
BglI	GCCNNNNNGGC	2 cut(s)	72, 406
BisI	GCNGC	9 cut(s)	64, 73, 124, 184, 238, 398, 432, 445, 809
BlpI	GCTNAGC	1 cut(s)	162
BlsI	GCNGC	9 cut(s)	65, 74, 125, 185, 239, 399, 433, 446, 810
Bme1390I	CCNGG	4 cut(s)	56, 394, 508, 563
Bme18I	GGWCC	2 cut(s)	58, 483
BmgT120I	GGNCC	2 cut(s)	58, 483
BmrFI	CCNGG	4 cut(s)	56, 394, 508, 563
BmsI	GCATC	2 cut(s)	322, 501
BpiI	GAAGAC	1 cut(s)	649
Bpu1102I	GCTNAGC	1 cut(s)	162
BpuMI	CCSGG	2 cut(s)	394, 508
BsaBI	GATNNNNATC	1 cut(s)	753
BsaJI	CCNNGG	2 cut(s)	67, 178
BsaWI	WCCGGW	1 cut(s)	638
Bsc4I	CCNNNNNNNGG	3 cut(s)	179, 645, 662
Bse1I	ACTGG	1 cut(s)	50
Bse3DI	GCAATG	2 cut(s)	426, 679
Bse8I	GATNNNNATC	1 cut(s)	753
BseAI	TCCGGA	1 cut(s)	638
BseBI	CCWGG	2 cut(s)	56, 563
BseDI	CCNNGG	2 cut(s)	67, 178
BseGI	GGATG	4 cut(s)	516, 609, 635, 754
BseJI	GATNNNNATC	1 cut(s)	753
BseLI	CCNNNNNNNGG	3 cut(s)	179, 645, 662
BseMI	GCAATG	2 cut(s)	426, 679
BseMII	CTCAG	1 cut(s)	176
BseNI	ACTGG	1 cut(s)	50
BseRI	GAGGAG	5 cut(s)	8, 187, 259, 731, 789
BseXI	GCAGC	3 cut(s)	50, 384, 456
BseYI	CCCAGC	1 cut(s)	23
BsgI	GTGCAG	1 cut(s)	781
Bsh1236I	CGCG	1 cut(s)	278
BshFI	GGCC	1 cut(s)	186
BsiHKAI	GWGCWC	2 cut(s)	105, 626
BsiSI	CCGG	3 cut(s)	394, 507, 639
BslI	CCNNNNNNNGG	3 cut(s)	179, 645, 662
BsmI	GAATGC	1 cut(s)	631
BsnI	GGCC	1 cut(s)	186
Bsp1286I	GDGCHC	2 cut(s)	105, 626
Bsp13I	TCCGGA	1 cut(s)	638
Bsp1407I	TGTACA	1 cut(s)	325
Bsp143I	GATC	2 cut(s)	469, 754
Bsp1720I	GCTNAGC	1 cut(s)	162
BspANI	GGCC	1 cut(s)	186
BspCNI	CTCAG	1 cut(s)	175
BspEI	TCCGGA	1 cut(s)	638
BspFNI	CGCG	1 cut(s)	278
BspMI	ACCTGC	1 cut(s)	351
BspPI	GGATC	1 cut(s)	477
BspTI	CTTAAG	1 cut(s)	473
BsrBI	CCGCTC	1 cut(s)	267
BsrDI	GCAATG	2 cut(s)	426, 679
BsrGI	TGTACA	1 cut(s)	325
BsrI	ACTGG	1 cut(s)	50
BssECI	CCNNGG	2 cut(s)	67, 178
BssMI	GATC	2 cut(s)	469, 754
Bst2UI	CCWGG	2 cut(s)	56, 563
Bst6I	CTCTTC	1 cut(s)	161
BstAFI	CTTAAG	1 cut(s)	473
BstAUI	TGTACA	1 cut(s)	325
BstC8I	GCNNGC	3 cut(s)	337, 382, 764
BstDEI	CTNAG	1 cut(s)	162
BstDSI	CCRYGG	1 cut(s)	178
BstF5I	GGATG	4 cut(s)	516, 609, 635, 754
BstFNI	CGCG	1 cut(s)	278
BstKTI	GATC	2 cut(s)	472, 757
BstMBI	GATC	2 cut(s)	469, 754
BstMWI	GCNNNNNNNGC	6 cut(s)	69, 72, 123, 243, 406, 453
BstNI	CCWGG	2 cut(s)	56, 563
BstSCI	CCNGG	4 cut(s)	54, 392, 506, 561
BstUI	CGCG	1 cut(s)	278
BstV1I	GCAGC	3 cut(s)	50, 384, 456
BstV2I	GAAGAC	1 cut(s)	649
BstX2I	RGATCY	1 cut(s)	469
BstYI	RGATCY	1 cut(s)	469
BsuRI	GGCC	1 cut(s)	186
BtgI	CCRYGG	1 cut(s)	178
BtsCI	GGATG	4 cut(s)	516, 609, 635, 754
BveI	ACCTGC	1 cut(s)	351
Cac8I	GCNNGC	3 cut(s)	337, 382, 764
Cfr13I	GGNCC	2 cut(s)	58, 483
CsiI	ACCWGGT	1 cut(s)	561
Csp6I	GTAC	3 cut(s)	313, 326, 535
CviQI	GTAC	3 cut(s)	313, 326, 535
DdeI	CTNAG	1 cut(s)	162
DpnI	GATC	2 cut(s)	471, 756
DpnII	GATC	2 cut(s)	469, 754
DrdI	GACNNNNNNGTC	1 cut(s)	651
DseDI	GACNNNNNNGTC	1 cut(s)	651
Eam1104I	CTCTTC	1 cut(s)	161
EarI	CTCTTC	1 cut(s)	161
EciI	GGCGGA	3 cut(s)	90, 181, 233
Ecl136II	GAGCTC	2 cut(s)	103, 624
Eco24I	GRGCYC	2 cut(s)	105, 626
Eco47I	GGWCC	2 cut(s)	58, 483
Eco53kI	GAGCTC	2 cut(s)	103, 624
Eco57I	CTGAAG	1 cut(s)	536
EcoICRI	GAGCTC	2 cut(s)	103, 624
EcoO109I	RGGNCCY	1 cut(s)	483
EcoRI	GAATTC	2 cut(s)	218, 449
EcoRII	CCWGG	2 cut(s)	54, 561
EcoT38I	GRGCYC	2 cut(s)	105, 626
FaiI	YATR	3 cut(s)	303, 353, 578
FalI	AAGNNNNNCTT	2 cut(s)	524, 556
Fnu4HI	GCNGC	9 cut(s)	64, 73, 124, 184, 238, 398, 432, 445, 809
FokI	GGATG	4 cut(s)	523, 616, 622, 761
FriOI	GRGCYC	2 cut(s)	105, 626
Fsp4HI	GCNGC	9 cut(s)	64, 73, 124, 184, 238, 398, 432, 445, 809
FspBI	CTAG	1 cut(s)	708
GluI	GCNGC	9 cut(s)	64, 73, 124, 184, 238, 398, 432, 445, 809
GsaI	CCCAGC	1 cut(s)	27
HaeIII	GGCC	1 cut(s)	186
HapII	CCGG	3 cut(s)	394, 507, 639
HincII	GTYRAC	1 cut(s)	859
HindII	GTYRAC	1 cut(s)	859
HinfI	GANTC	3 cut(s)	31, 280, 422
HpaII	CCGG	3 cut(s)	394, 507, 639
HphI	GGTGA	1 cut(s)	565
Hpy166II	GTNNAC	3 cut(s)	313, 328, 859
Hpy188III	TCNNGA	3 cut(s)	499, 639, 708
Hpy8I	GTNNAC	3 cut(s)	313, 328, 859
HpyAV	CCTTC	4 cut(s)	183, 271, 496, 768
HpyCH4IV	ACGT	1 cut(s)	315
HpyCH4V	TGCA	4 cut(s)	87, 335, 631, 762
HpyF10VI	GCNNNNNNNGC	6 cut(s)	69, 72, 123, 243, 406, 453
HpyF3I	CTNAG	1 cut(s)	162
HpySE526I	ACGT	1 cut(s)	315
Kpn2I	TCCGGA	1 cut(s)	638
Kzo9I	GATC	2 cut(s)	469, 754
LmnI	GCTCC	5 cut(s)	100, 171, 272, 629, 802
Lsp1109I	GCAGC	3 cut(s)	50, 384, 456
LweI	GCATC	2 cut(s)	322, 501
MabI	ACCWGGT	1 cut(s)	561
MaeI	CTAG	1 cut(s)	708
MaeII	ACGT	1 cut(s)	315
MaeIII	GTNAC	2 cut(s)	553, 675
MalI	GATC	2 cut(s)	471, 756
MbiI	CCGCTC	1 cut(s)	267
MboI	GATC	2 cut(s)	469, 754
MboII	GAAGA	4 cut(s)	148, 317, 487, 654
MflI	RGATCY	1 cut(s)	469
MhlI	GDGCHC	2 cut(s)	105, 626
MluCI	AATT	6 cut(s)	134, 218, 411, 449, 616, 688
MmeI	TCCRAC	3 cut(s)	169, 318, 726
MroI	TCCGGA	1 cut(s)	638
MseI	TTAA	1 cut(s)	474
MspA1I	CMGCKG	1 cut(s)	63
MspCI	CTTAAG	1 cut(s)	473
MspI	CCGG	3 cut(s)	394, 507, 639
MspR9I	CCNGG	4 cut(s)	56, 394, 508, 563
Mva1269I	GAATGC	1 cut(s)	631
MvaI	CCWGG	2 cut(s)	56, 563
MvnI	CGCG	1 cut(s)	278
MwoI	GCNNNNNNNGC	6 cut(s)	69, 72, 123, 243, 406, 453
NciI	CCSGG	2 cut(s)	394, 508
NdeII	GATC	2 cut(s)	469, 754
NmeAIII	GCCGAG	2 cut(s)	48, 136
NmuCI	GTSAC	2 cut(s)	553, 675
PaqCI	CACCTGC	1 cut(s)	351
PctI	GAATGC	1 cut(s)	631
PfeI	GAWTC	3 cut(s)	31, 280, 422
PfoI	TCCNGGA	2 cut(s)	54, 506
PkrI	GCNGC	9 cut(s)	65, 74, 125, 185, 239, 399, 433, 446, 810
PpuMI	RGGWCCY	1 cut(s)	483
Psp124BI	GAGCTC	2 cut(s)	105, 626
Psp5II	RGGWCCY	1 cut(s)	483
Psp6I	CCWGG	2 cut(s)	54, 561
PspFI	CCCAGC	1 cut(s)	23
PspGI	CCWGG	2 cut(s)	54, 561
PspPI	GGNCC	2 cut(s)	58, 483
PspPPI	RGGWCCY	1 cut(s)	483
PsuI	RGATCY	1 cut(s)	469
RsaI	GTAC	3 cut(s)	314, 327, 536
RsaNI	GTAC	3 cut(s)	313, 326, 535
SacI	GAGCTC	2 cut(s)	105, 626
SaqAI	TTAA	1 cut(s)	474
SatI	GCNGC	9 cut(s)	64, 73, 124, 184, 238, 398, 432, 445, 809
Sau3AI	GATC	2 cut(s)	469, 754
Sau96I	GGNCC	2 cut(s)	58, 483
ScrFI	CCNGG	4 cut(s)	56, 394, 508, 563
SduI	GDGCHC	2 cut(s)	105, 626
SexAI	ACCWGGT	1 cut(s)	561
SfaNI	GCATC	2 cut(s)	322, 501
SinI	GGWCC	2 cut(s)	58, 483
SmlI	CTYRAG	1 cut(s)	473
SmoI	CTYRAG	1 cut(s)	473
Sse9I	AATT	6 cut(s)	134, 218, 411, 449, 616, 688
SspMI	CTAG	1 cut(s)	708
SstI	GAGCTC	2 cut(s)	105, 626
StyD4I	CCNGG	4 cut(s)	54, 392, 506, 561
TaiI	ACGT	1 cut(s)	318
TaqI	TCGA	3 cut(s)	348, 498, 692
TasI	AATT	6 cut(s)	134, 218, 411, 449, 616, 688
TatI	WGTACW	2 cut(s)	325, 534
TauI	GCSGC	6 cut(s)	75, 126, 186, 240, 434, 811
TfiI	GAWTC	3 cut(s)	31, 280, 422
Tru1I	TTAA	1 cut(s)	474
Tru9I	TTAA	1 cut(s)	474
TseFI	GTSAC	2 cut(s)	553, 675
TseI	GCWGC	3 cut(s)	63, 397, 444
Tsp45I	GTSAC	2 cut(s)	553, 675
TspDTI	ATGAA	3 cut(s)	17, 318, 624
TspGWI	ACGGA	1 cut(s)	113
Vha464I	CTTAAG	1 cut(s)	473
VpaK11BI	GGWCC	2 cut(s)	58, 483
XapI	RAATTY	4 cut(s)	218, 449, 616, 688
XbaI	TCTAGA	1 cut(s)	707
XspI	CTAG	1 cut(s)	708

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