Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0000794

Physical Location & Seq

Genomic Coordinates Reverse (-)

70478872 .. 70482831

Gene Structure 3960 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG439600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 966 bp

ATGGCACCCTTCAAAGCTCTGGAGCTAGAGTACCCAATAATCGACTCCAATTTCCAGACTTTTTGCGCCTCACATGGCATTCTCTCAGTGGAAGATTTCCTCATTCACGACCTGTATGAGTTGGCTGCGTTTGCAAAACAACAGCCCACCTCGGAAAAACTAGAGCAGGGGATTACCCAGATCCTATCTATTATTGATGAGCAGCACCAACCATGGGTGAATGGTGTGGAACTTTTAGATGATACTCTACATAGGAAACATGTAATTCCAACTGGGTGTGAAGGGGTTGATTTGTTACTGGGTGGTGGATTACATGAGGGACAATTAACTGAACTTGTTGGGCCGTCATCTTCTGGTAAAACGCAAGTCTGCCTGCTTGCTGCCTCATATCTTGCATCAAAGCACATGGGTACTGTTGTATACCTAGACACAGGAAACTCTTTCTCCACCCAACGAATTGCAGAGTTTGTTGGTCGATTCTCTAACCCCATGTTTAGTCAGGCAGGCCATAGGAATTTTCAGAAAGTAATGAACAACATCTTGTGCCATTCCGTGTTTGACATCTTTACAATGTTCAATGTGTTACATCAGCTGGAGTTCAATTTGAAATCTCAGCTGCAGAAAGGAGGGCAGGTGCGGTTGCTTATTGTTGATTCGATCTCTTCACTAATTACCCCAATTCTTGGGAATATAGGTTCACAGGGACGTGCTTTGATGACATCTGCTGGATATTTGTTAAAGAAATTAGCACATGAGCATAATATTGTGGTACTGGTGACCAATCACACAGTAGGTGGAGAGAGAGGTATTCCAAAACCAGCTCTTGGCCAGATCTGGAAGACCGTTGCACATGTGAGGCTTCTGCTTTCTGCTGACCATGGAAATGATACCCGGAGTATTTCTGTGCTAAAACACCCATCTATGGTACATTATCCCTTATCCACATTCTATCACAATCCTGAGTAA

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:0002831 GO:0002833 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:0016444 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022402 GO:0022414 GO:0022607 GO:0031347 GO:0031349 GO:0032101 GO:0032103 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:0043900 GO:0043902 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:0048518 GO:0048583 GO:0048584 GO:0050789 GO:0050896 GO:0051321 GO:0051716 GO:0061982 GO:0065003 GO:0065004 GO:0065007 GO:0071704 GO:0071824 GO:0071840 GO:0080134 GO:0090304 GO:0090735 GO:0097159 GO:0140013 GO:0140097 GO:1900424 GO:1900426 GO:1901360 GO:1901363 GO:1903046

KEGG Pathways

Metabolic & Signaling

ko03440 map03440

Pfam Domains

Protein Families

Rad51

Protein Analysis

321

Amino Acids

35.42

Weight (kDa)

6.4

Isoelectric Point (pI)

26.53

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RecA_N	PF00154	79 - 152	1.2e-06	RecA N-terminal domain
Rad51	PF08423	89 - 308	4.8e-18	Rad51
AAA_25	PF13481	97 - 263	1.1e-06	AAA domain

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: OG0000794)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G07745 AT1G07745 AT1G07745 AT1G07745 AT1G07745
fragaria_vesca	FvH4_3g34810 FvH4_3g34810 FvH4_3g34810 FvH4_3g34810 FvH4_3g34810 FvH4_3g34810 FvH4_3g34810 FvH4_3g34810 FvH4_3g34810 FvH4_3g34810 FvH4_3g34810 FvH4_3g34810 FvH4_3g34810 FvH4_3g34810 FvH4_3g34810 FvH4_3g34810 FvH4_3g34810
malus_domestica	MD11G1043900.v1.1 MD11G1115100.v1.1
prunus_persica	Prupe.6G066800_v2.0.a1 Prupe.6G066800_v2.0.a1 Prupe.6G066800_v2.0.a1 Prupe.6G066800_v2.0.a1 Prupe.6G066800_v2.0.a1 Prupe.6G066800_v2.0.a1 Prupe.6G066800_v2.0.a1 Prupe.6G066800_v2.0.a1 Prupe.6G066800_v2.0.a1 Prupe.6G066800_v2.0.a1 Prupe.6G066800_v2.0.a1 Prupe.6G066800_v2.0.a1 Prupe.6G066800_v2.0.a1 Prupe.6G066800_v2.0.a1 Prupe.6G066800_v2.0.a1 Prupe.6G066800_v2.0.a1 Prupe.6G066800_v2.0.a1 Prupe.6G066800_v2.0.a1 Prupe.6G066800_v2.0.a1 Prupe.6G066800_v2.0.a1 Prupe.6G066800_v2.0.a1 Prupe.6G066800_v2.0.a1 Prupe.6G066800_v2.0.a1 Prupe.6G086100_v2.0.a1 Prupe.6G086100_v2.0.a1 Prupe.6G086100_v2.0.a1 Prupe.6G086100_v2.0.a1 Prupe.6G086100_v2.0.a1 Prupe.6G086100_v2.0.a1 Prupe.6G086100_v2.0.a1 Prupe.6G086100_v2.0.a1 Prupe.6G086100_v2.0.a1
pyrus_communis	pycom11g09660
rosa_chinensis	RchiOBHm_Chr5g0062661
rosa_laevigata	RLG00000035569
rosa_multiflora	Rmu_sc0006470.1_g000002 Rmu_ssc0000472.1_g000029
rosa_roxburghii	Rroxscaffold_1G00017970
rosa_rugosa	Rorug05G0350700 Rorug05G0350800
rosa_samantha	Rh5AG411600 Rh5BG425600 Rh5CG449700 Rh5DG439600
rosa_wichuraiana	Rw5G038700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	622
Acc36I	ACCTGC	1 cut(s)	622
AccB1I	GGYRCC	1 cut(s)	4
AccB7I	CCANNNNNTGG	2 cut(s)	683, 824
AccI	GTMKAC	1 cut(s)	420
AciI	CCGC	1 cut(s)	637
AclWI	GGATC	1 cut(s)	175
AcoI	YGGCCR	1 cut(s)	826
AcsI	RAATTY	1 cut(s)	514
AfaI	GTAC	4 cut(s)	32, 412, 771, 927
AfiI	CCNNNNNNNGG	4 cut(s)	214, 683, 824, 922
AflIII	ACRYGT	2 cut(s)	259, 850
AgsI	TTSAA	4 cut(s)	13, 577, 601, 607
AjiI	CACGTC	1 cut(s)	707
AloI	GAACNNNNNNTCC	2 cut(s)	679, 711
AluBI	AGCT	5 cut(s)	17, 25, 592, 616, 821
AluI	AGCT	5 cut(s)	17, 25, 592, 616, 821
AlwI	GGATC	1 cut(s)	175
AoxI	GGCC	3 cut(s)	341, 505, 826
ApeKI	GCWGC	4 cut(s)	125, 202, 380, 616
ApoI	RAATTY	1 cut(s)	514
AspLEI	GCGC	1 cut(s)	68
AspS9I	GGNCC	1 cut(s)	341
AsuC2I	CCSGG	1 cut(s)	892
AsuHPI	GGTGA	2 cut(s)	229, 787
BaeI	ACNNNNGTAYC	2 cut(s)	402, 435
BalI	TGGCCA	1 cut(s)	828
BanI	GGYRCC	1 cut(s)	4
BbsI	GAAGAC	1 cut(s)	845
BbvI	GCAGC	4 cut(s)	112, 214, 367, 603
BccI	CCATC	1 cut(s)	925
BceAI	ACGGC	1 cut(s)	328
BcnI	CCSGG	1 cut(s)	892
BfaI	CTAG	3 cut(s)	26, 161, 425
BfmI	CTRYAG	1 cut(s)	617
BfuAI	ACCTGC	1 cut(s)	622
BglII	AGATCT	1 cut(s)	831
BisI	GCNGC	4 cut(s)	126, 203, 381, 617
BlsI	GCNGC	4 cut(s)	127, 204, 382, 618
Bme1390I	CCNGG	1 cut(s)	892
BmgBI	CACGTC	1 cut(s)	707
BmgT120I	GGNCC	1 cut(s)	341
BmiI	GGNNCC	1 cut(s)	6
BmrFI	CCNGG	1 cut(s)	892
BmrI	ACTGGG	2 cut(s)	282, 308
BmsI	GCATC	1 cut(s)	404
BmuI	ACTGGG	2 cut(s)	282, 308
BpiI	GAAGAC	1 cut(s)	845
BpmI	CTGGAG	2 cut(s)	41, 614
BpuMI	CCSGG	1 cut(s)	892
BsaJI	CCNNGG	3 cut(s)	150, 212, 877
BsaXI	ACNNNNNCTCC	6 cut(s)	14, 44, 428, 458, 618, 648
Bsc4I	CCNNNNNNNGG	4 cut(s)	214, 683, 824, 922
Bse1I	ACTGG	3 cut(s)	277, 303, 777
BseDI	CCNNGG	3 cut(s)	150, 212, 877
BseLI	CCNNNNNNNGG	4 cut(s)	214, 683, 824, 922
BseMII	CTCAG	3 cut(s)	99, 626, 951
BseNI	ACTGG	3 cut(s)	277, 303, 777
BseXI	GCAGC	4 cut(s)	112, 214, 367, 603
BshFI	GGCC	3 cut(s)	343, 507, 828
BshNI	GGYRCC	1 cut(s)	4
BsiSI	CCGG	1 cut(s)	892
BslFI	GGGAC	2 cut(s)	333, 717
BslI	CCNNNNNNNGG	4 cut(s)	214, 683, 824, 922
BsmFI	GGGAC	2 cut(s)	333, 717
BsmI	GAATGC	1 cut(s)	78
BsnI	GGCC	3 cut(s)	343, 507, 828
Bsp143I	GATC	3 cut(s)	180, 657, 831
Bsp19I	CCATGG	2 cut(s)	212, 877
BspACI	CCGC	1 cut(s)	637
BspANI	GGCC	3 cut(s)	343, 507, 828
BspCNI	CTCAG	3 cut(s)	98, 625, 952
BspLI	GGNNCC	1 cut(s)	6
BspMAI	CTGCAG	1 cut(s)	621
BspMI	ACCTGC	1 cut(s)	622
BspPI	GGATC	1 cut(s)	175
BspT107I	GGYRCC	1 cut(s)	4
BsrI	ACTGG	3 cut(s)	277, 303, 777
BssECI	CCNNGG	3 cut(s)	150, 212, 877
BssMI	GATC	3 cut(s)	180, 657, 831
BssNAI	GTATAC	1 cut(s)	421
BssT1I	CCWWGG	2 cut(s)	212, 877
Bst1107I	GTATAC	1 cut(s)	421
Bst4CI	ACNGT	3 cut(s)	415, 790, 844
Bst6I	CTCTTC	1 cut(s)	667
BstC8I	GCNNGC	3 cut(s)	374, 378, 505
BstDEI	CTNAG	3 cut(s)	85, 612, 960
BstDSI	CCRYGG	2 cut(s)	212, 877
BstEII	GGTNACC	1 cut(s)	775
BstHHI	GCGC	1 cut(s)	68
BstKTI	GATC	3 cut(s)	183, 660, 834
BstMBI	GATC	3 cut(s)	180, 657, 831
BstMWI	GCNNNNNNNGC	1 cut(s)	131
BstNSI	RCATGY	2 cut(s)	263, 854
BstPI	GGTNACC	1 cut(s)	775
BstSCI	CCNGG	1 cut(s)	890
BstSFI	CTRYAG	1 cut(s)	617
BstV1I	GCAGC	4 cut(s)	112, 214, 367, 603
BstV2I	GAAGAC	1 cut(s)	845
BstX2I	RGATCY	2 cut(s)	180, 831
BstYI	RGATCY	2 cut(s)	180, 831
BstZ17I	GTATAC	1 cut(s)	421
BsuRI	GGCC	3 cut(s)	343, 507, 828
BtgI	CCRYGG	2 cut(s)	212, 877
BtrI	CACGTC	1 cut(s)	707
BtsIMutI	CAGTG	1 cut(s)	93
BveI	ACCTGC	1 cut(s)	622
Cac8I	GCNNGC	3 cut(s)	374, 378, 505
CfoI	GCGC	1 cut(s)	68
Cfr13I	GGNCC	1 cut(s)	341
Csp6I	GTAC	4 cut(s)	31, 411, 770, 926
CviAII	CATG	9 cut(s)	74, 213, 260, 314, 406, 490, 752, 851, 878
CviQI	GTAC	4 cut(s)	31, 411, 770, 926
DdeI	CTNAG	3 cut(s)	85, 612, 960
DpnI	GATC	3 cut(s)	182, 659, 833
DpnII	GATC	3 cut(s)	180, 657, 831
EaeI	YGGCCR	1 cut(s)	826
Eam1104I	CTCTTC	1 cut(s)	667
EarI	CTCTTC	1 cut(s)	667
Eco130I	CCWWGG	2 cut(s)	212, 877
Eco91I	GGTNACC	1 cut(s)	775
EcoO65I	GGTNACC	1 cut(s)	775
EcoT14I	CCWWGG	2 cut(s)	212, 877
ErhI	CCWWGG	2 cut(s)	212, 877
FaeI	CATG	9 cut(s)	77, 216, 263, 317, 409, 493, 755, 854, 881
FaqI	GGGAC	2 cut(s)	333, 717
FatI	CATG	9 cut(s)	73, 212, 259, 313, 405, 489, 751, 850, 877
FblI	GTMKAC	1 cut(s)	420
Fnu4HI	GCNGC	4 cut(s)	126, 203, 381, 617
Fsp4HI	GCNGC	4 cut(s)	126, 203, 381, 617
FspBI	CTAG	3 cut(s)	26, 161, 425
GlaI	GCGC	1 cut(s)	67
GluI	GCNGC	4 cut(s)	126, 203, 381, 617
GsuI	CTGGAG	2 cut(s)	41, 614
HaeIII	GGCC	3 cut(s)	343, 507, 828
HapII	CCGG	1 cut(s)	892
HhaI	GCGC	1 cut(s)	68
Hin1II	CATG	9 cut(s)	77, 216, 263, 317, 409, 493, 755, 854, 881
Hin6I	GCGC	1 cut(s)	66
HinP1I	GCGC	1 cut(s)	66
HinfI	GANTC	3 cut(s)	44, 477, 653
HpaII	CCGG	1 cut(s)	892
HphI	GGTGA	2 cut(s)	229, 787
Hpy166II	GTNNAC	2 cut(s)	421, 698
Hpy188I	TCNGA	2 cut(s)	154, 522
Hpy188III	TCNNGA	5 cut(s)	20, 55, 107, 835, 959
Hpy8I	GTNNAC	2 cut(s)	421, 698
HpyAV	CCTTC	2 cut(s)	19, 275
HpyCH4III	ACNGT	3 cut(s)	415, 790, 844
HpyCH4IV	ACGT	1 cut(s)	706
HpyCH4V	TGCA	5 cut(s)	134, 395, 461, 619, 848
HpyF10VI	GCNNNNNNNGC	1 cut(s)	131
HpyF3I	CTNAG	3 cut(s)	85, 612, 960
HpySE526I	ACGT	1 cut(s)	706
Hsp92II	CATG	9 cut(s)	77, 216, 263, 317, 409, 493, 755, 854, 881
HspAI	GCGC	1 cut(s)	66
Kzo9I	GATC	3 cut(s)	180, 657, 831
LmnI	GCTCC	1 cut(s)	22
Lsp1109I	GCAGC	4 cut(s)	112, 214, 367, 603
LweI	GCATC	1 cut(s)	404
MaeI	CTAG	3 cut(s)	26, 161, 425
MaeII	ACGT	1 cut(s)	706
MaeIII	GTNAC	3 cut(s)	294, 582, 775
MalI	GATC	3 cut(s)	182, 659, 833
MboI	GATC	3 cut(s)	180, 657, 831
MboII	GAAGA	4 cut(s)	104, 342, 654, 850
MflI	RGATCY	2 cut(s)	180, 831
MlsI	TGGCCA	1 cut(s)	828
MluCI	AATT	9 cut(s)	49, 264, 323, 456, 514, 601, 669, 678, 743
MluNI	TGGCCA	1 cut(s)	828
MlyI	GAGTC	1 cut(s)	38
MmeI	TCCRAC	1 cut(s)	293
MnlI	CCTC	8 cut(s)	79, 110, 160, 310, 394, 620, 797, 849
Mox20I	TGGCCA	1 cut(s)	828
MscI	TGGCCA	1 cut(s)	828
MseI	TTAA	2 cut(s)	326, 737
MslI	CAYNNNNRTG	1 cut(s)	882
Msp20I	TGGCCA	1 cut(s)	828
MspA1I	CMGCKG	2 cut(s)	592, 616
MspI	CCGG	1 cut(s)	892
MspR9I	CCNGG	1 cut(s)	892
Mva1269I	GAATGC	1 cut(s)	78
MwoI	GCNNNNNNNGC	1 cut(s)	131
NciI	CCSGG	1 cut(s)	892
NcoI	CCATGG	2 cut(s)	212, 877
NdeII	GATC	3 cut(s)	180, 657, 831
NlaIII	CATG	9 cut(s)	77, 216, 263, 317, 409, 493, 755, 854, 881
NlaIV	GGNNCC	1 cut(s)	6
NmuCI	GTSAC	1 cut(s)	775
NspI	RCATGY	2 cut(s)	263, 854
PaqCI	CACCTGC	1 cut(s)	622
PciI	ACATGT	2 cut(s)	259, 850
PctI	GAATGC	1 cut(s)	78
PfeI	GAWTC	2 cut(s)	477, 653
PflMI	CCANNNNNTGG	2 cut(s)	683, 824
PkrI	GCNGC	4 cut(s)	127, 204, 382, 618
PleI	GAGTC	1 cut(s)	38
PpsI	GAGTC	1 cut(s)	38
PscI	ACATGT	2 cut(s)	259, 850
PspEI	GGTNACC	1 cut(s)	775
PspN4I	GGNNCC	1 cut(s)	6
PspPI	GGNCC	1 cut(s)	341
PstI	CTGCAG	1 cut(s)	621
PsuI	RGATCY	2 cut(s)	180, 831
PvuII	CAGCTG	2 cut(s)	592, 616
RsaI	GTAC	4 cut(s)	32, 412, 771, 927
RsaNI	GTAC	4 cut(s)	31, 411, 770, 926
RseI	CAYNNNNRTG	1 cut(s)	882
SaqAI	TTAA	2 cut(s)	326, 737
SatI	GCNGC	4 cut(s)	126, 203, 381, 617
Sau3AI	GATC	3 cut(s)	180, 657, 831
Sau96I	GGNCC	1 cut(s)	341
SchI	GAGTC	1 cut(s)	38
ScrFI	CCNGG	1 cut(s)	892
SfaNI	GCATC	1 cut(s)	404
SfcI	CTRYAG	1 cut(s)	617
SmiMI	CAYNNNNRTG	1 cut(s)	882
Sse9I	AATT	9 cut(s)	49, 264, 323, 456, 514, 601, 669, 678, 743
SsiI	CCGC	1 cut(s)	637
SspI	AATATT	1 cut(s)	763
SspMI	CTAG	3 cut(s)	26, 161, 425
StyD4I	CCNGG	1 cut(s)	890
StyI	CCWWGG	2 cut(s)	212, 877
TaaI	ACNGT	3 cut(s)	415, 790, 844
TaiI	ACGT	1 cut(s)	709
TaqI	TCGA	3 cut(s)	42, 475, 656
TasI	AATT	9 cut(s)	49, 264, 323, 456, 514, 601, 669, 678, 743
TfiI	GAWTC	2 cut(s)	477, 653
Tru1I	TTAA	2 cut(s)	326, 737
Tru9I	TTAA	2 cut(s)	326, 737
TscAI	CASTG	1 cut(s)	93
TseFI	GTSAC	1 cut(s)	775
TseI	GCWGC	4 cut(s)	125, 202, 380, 616
Tsp45I	GTSAC	1 cut(s)	775
TspDTI	ATGAA	1 cut(s)	545
TspGWI	ACGGA	1 cut(s)	541
TspRI	CASTG	1 cut(s)	93
Van91I	CCANNNNNTGG	2 cut(s)	683, 824
XapI	RAATTY	1 cut(s)	514
XceI	RCATGY	2 cut(s)	263, 854
XmiI	GTMKAC	1 cut(s)	420
XspI	CTAG	3 cut(s)	26, 161, 425

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