Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr5

Orthogroup ID

OG0006670

Physical Location & Seq

Genomic Coordinates Reverse (-)

20471283 .. 20476267

Gene Structure 4985 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000023245

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1191 bp

ATGGGTTTACTCAACTCTCCTCCACTCGCACACCGTCTTGCTCTGGCGGCGTTCACCCAACCTCGCCTCTCTTCTCTACTCTTCTCTTTTGTTTCTCCACGCAGAGGAAGAAGACACTCGACGGCGACTTATAGTGGTGAATGTGCTACACTGGATTATGATGATAATGACGATGCTAAAGCGAGAGAGAAAGATGCTGCACTGCATTTGGCTCTCTCACAGCTTTCTGCCGATTTCGGGCACGAATCCATGTTGTCCCTGCCGCGGTTTTTTCGCTCGAGGCGCGCACCTGTTATCTCCACTGGCTCCTTGAAGCTTGACATAGCTCTGGGGACTGGAGGATTGCCAAAGGGAAGAATTGTTGAGATTTATGGGCAGGAAGCATCTGGCAAGACTACGCTTGCACTTCACATCGTCAAGGAAGCTCAAAAGCTTGGAGGGTATTGTGCATATCTGGATGTAGAGAATGCGTTGGACCCTTCACTTGCAGAATCAATGGGTGTAAACACAGAAAACCTTCTCATTTCGCATCCCAATTCTGCTGAAAATGTGCTGAATGTGGTTGACACTCTGACCAAAAGTGGTTCCTTGGATGTAATTGTTGTGGATAGTGTAGCTGCTCTGGTCCCCCAGTGTGAACTTGAGGTTGCAATTGGTAGTGCATACCCAGACGCTCAGTCAAGAATAATGACCCAAGCACTACGGAAAATTCATTCTTCATTAAGCCATTCTCAAGCACTTGTTGTCTTTATAAATCAGGTTAGATCAAGTCCAAACTCAGGGCAAGGTTTTGGACCTGTGGATGAGGTCACCTGTGGTGGAAATGCCTTGAGATTCTATGCAGCTGTTCGATTGAGAATAAAAAAAACCCAGTTGCTTAAGACTGAGGATCAGATTACAGGTCTTGGGATTTCCGTGCAAGTGGTGAAAAATAAATTGGCACTTGCAATGAAGAAGGCTGATCTGGGGATACAGTTTGGTAGAGGGTTATGCTGTGAATCTGAGGTATTGCAATTGGCTTGCGAACATGGGGTCATTGCGAAAGAAGGAAGCAACTACCACATAGGAAGAAAGGTTTTTAGTAATGTACATTCAGCAGAACAGTATTTGGCTAAAAATGATGATATTTTGAATAAGATAGTTAGGATCTTGAGGCAAACTTTATTTGAAGAAGATAGTCAATTTAGGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000002 GO:0000150 GO:0000217 GO:0000400 GO:0000724 GO:0000725 GO:0000730 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003697 GO:0003824 GO:0005488 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006312 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007005 GO:0008094 GO:0008150 GO:0008152 GO:0009266 GO:0009314 GO:0009408 GO:0009628 GO:0009987 GO:0010212 GO:0016043 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022607 GO:0033554 GO:0034622 GO:0034641 GO:0042148 GO:0042623 GO:0043170 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0045003 GO:0046483 GO:0050896 GO:0051716 GO:0065003 GO:0065004 GO:0071704 GO:0071824 GO:0071840 GO:0090304 GO:0090735 GO:0097159 GO:0140097 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Glyco_hydro_17 RecA

Protein Analysis

397

Amino Acids

42.94

Weight (kDa)

8.11

Isoelectric Point (pI)

39.16

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RecA_N	PF00154	67 - 330	3.7e-88	RecA N-terminal domain
Rad51	PF08423	98 - 291	9.9e-11	Rad51
ATPase	PF06745	100 - 172	3.7e-06	KaiC

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0006670)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G10140
fragaria_vesca	FvH4_6g24630 FvH4_6g24630 FvH4_6g24630 FvH4_6g24630
malus_domestica	MD08G1164600.v1.1
prunus_persica	Prupe.7G052200_v2.0.a1
pyrus_communis	pycom12654g00020
rosa_chinensis	RchiOBHm_Chr3g0483971
rosa_laevigata	RLG00000015036 RLG00000023245 RLG00000030551 RLG00000032361
rosa_multiflora	Rmu_sc0001190.1_g000001 Rmu_sc0001527.1_g000019 Rmu_sc0003477.1_g000015 Rmu_sc0020880.1_g000007 Rmu_ssc0000295.1_g000053
rosa_roxburghii	Rroxscaffold_6G00397920
rosa_rugosa	Rorug03G0209800
rosa_samantha	Rh3AG258000 Rh3BG295100 Rh3CG292500 Rh3DG288200 Rh6AG313300
rosa_wichuraiana	Rw6G027080

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	752
AccII	CGCG	2 cut(s)	265, 285
AciI	CCGC	3 cut(s)	47, 263, 265
AclWI	GGATC	2 cut(s)	897, 1154
AcsI	RAATTY	1 cut(s)	708
AfaI	GTAC	1 cut(s)	1089
AfiI	CCNNNNNNNGG	4 cut(s)	104, 237, 264, 779
AflII	CTTAAG	1 cut(s)	878
AgsI	TTSAA	3 cut(s)	313, 1132, 1169
AhdI	GACNNNNNGTC	1 cut(s)	676
AjuI	GAANNNNNNNTTGG	2 cut(s)	920, 952
AluBI	AGCT	7 cut(s)	223, 316, 326, 425, 433, 617, 845
AluI	AGCT	7 cut(s)	223, 316, 326, 425, 433, 617, 845
AlwI	GGATC	2 cut(s)	897, 1154
Ama87I	CYCGRG	1 cut(s)	277
ApeKI	GCWGC	3 cut(s)	197, 617, 842
ApoI	RAATTY	1 cut(s)	708
ArsI	GACNNNNNNTTYG	2 cut(s)	1017, 1049
Asp700I	GAANNNNTTC	1 cut(s)	516
AspLEI	GCGC	2 cut(s)	285, 287
AspS9I	GGNCC	3 cut(s)	475, 625, 794
AsuHPI	GGTGA	4 cut(s)	46, 149, 802, 937
AvaI	CYCGRG	1 cut(s)	277
AvaII	GGWCC	3 cut(s)	475, 625, 794
BaeGI	GKGCMC	1 cut(s)	243
BbsI	GAAGAC	1 cut(s)	118
BbvI	GCAGC	3 cut(s)	184, 604, 854
BceAI	ACGGC	1 cut(s)	138
BciVI	GTATCC	1 cut(s)	963
BfrI	CTTAAG	1 cut(s)	878
BfuI	GTATCC	1 cut(s)	963
BisI	GCNGC	5 cut(s)	48, 198, 263, 618, 843
BlsI	GCNGC	5 cut(s)	49, 199, 264, 619, 844
Bme18I	GGWCC	3 cut(s)	475, 625, 794
BmeRI	GACNNNNNGTC	1 cut(s)	676
BmeT110I	CYCGRG	1 cut(s)	277
BmgT120I	GGNCC	3 cut(s)	475, 625, 794
BmiI	GGNNCC	4 cut(s)	307, 477, 586, 627
BmrI	ACTGGG	2 cut(s)	625, 865
BmsI	GCATC	4 cut(s)	163, 184, 392, 538
BmuI	ACTGGG	2 cut(s)	625, 865
BpiI	GAAGAC	1 cut(s)	118
BpmI	CTGGAG	1 cut(s)	357
BpuEI	CTTGAG	4 cut(s)	662, 717, 850, 1171
BsaJI	CCNNGG	2 cut(s)	263, 588
Bsc4I	CCNNNNNNNGG	4 cut(s)	104, 237, 264, 779
Bse1I	ACTGG	5 cut(s)	156, 307, 340, 631, 871
Bse3DI	GCAATG	2 cut(s)	954, 1035
BseDI	CCNNGG	2 cut(s)	263, 588
BseGI	GGATG	4 cut(s)	463, 529, 598, 808
BseLI	CCNNNNNNNGG	4 cut(s)	104, 237, 264, 779
BseMI	GCAATG	2 cut(s)	954, 1035
BseMII	CTCAG	4 cut(s)	689, 792, 876, 993
BseNI	ACTGG	5 cut(s)	156, 307, 340, 631, 871
BsePI	GCGCGC	1 cut(s)	283
BseRI	GAGGAG	1 cut(s)	9
BseSI	GKGCMC	1 cut(s)	243
BseXI	GCAGC	3 cut(s)	184, 604, 854
BsgI	GTGCAG	1 cut(s)	183
Bsh1236I	CGCG	2 cut(s)	265, 285
BsiHKCI	CYCGRG	1 cut(s)	277
BslFI	GGGAC	3 cut(s)	241, 346, 611
BslI	CCNNNNNNNGG	4 cut(s)	104, 237, 264, 779
BsmFI	GGGAC	3 cut(s)	241, 346, 611
BsmI	GAATGC	1 cut(s)	472
BsoBI	CYCGRG	1 cut(s)	277
Bsp1286I	GDGCHC	1 cut(s)	243
Bsp1407I	TGTACA	1 cut(s)	1087
Bsp143I	GATC	4 cut(s)	764, 889, 961, 1146
BspACI	CCGC	3 cut(s)	47, 263, 265
BspCNI	CTCAG	4 cut(s)	688, 791, 877, 994
BspFNI	CGCG	2 cut(s)	265, 285
BspLI	GGNNCC	4 cut(s)	307, 477, 586, 627
BspPI	GGATC	2 cut(s)	897, 1154
BspTI	CTTAAG	1 cut(s)	878
BsrDI	GCAATG	2 cut(s)	954, 1035
BsrGI	TGTACA	1 cut(s)	1087
BsrI	ACTGG	5 cut(s)	156, 307, 340, 631, 871
BssECI	CCNNGG	2 cut(s)	263, 588
BssHII	GCGCGC	1 cut(s)	283
BssMI	GATC	4 cut(s)	764, 889, 961, 1146
BssT1I	CCWWGG	1 cut(s)	588
Bst4CI	ACNGT	3 cut(s)	35, 975, 1104
Bst6I	CTCTTC	2 cut(s)	76, 86
BstAFI	CTTAAG	1 cut(s)	878
BstAUI	TGTACA	1 cut(s)	1087
BstC8I	GCNNGC	3 cut(s)	285, 402, 1021
BstDEI	CTNAG	4 cut(s)	675, 778, 885, 1002
BstDSI	CCRYGG	1 cut(s)	263
BstEII	GGTNACC	1 cut(s)	808
BstF5I	GGATG	4 cut(s)	463, 529, 598, 808
BstFNI	CGCG	2 cut(s)	265, 285
BstHHI	GCGC	2 cut(s)	285, 287
BstKTI	GATC	4 cut(s)	767, 892, 964, 1149
BstMBI	GATC	4 cut(s)	764, 889, 961, 1146
BstMWI	GCNNNNNNNGC	2 cut(s)	47, 282
BstPI	GGTNACC	1 cut(s)	808
BstSLI	GKGCMC	1 cut(s)	243
BstUI	CGCG	2 cut(s)	265, 285
BstV1I	GCAGC	3 cut(s)	184, 604, 854
BstV2I	GAAGAC	1 cut(s)	118
BstX2I	RGATCY	1 cut(s)	1146
BstYI	RGATCY	1 cut(s)	1146
BsuI	GTATCC	1 cut(s)	963
BtgI	CCRYGG	1 cut(s)	263
BtsCI	GGATG	4 cut(s)	463, 529, 598, 808
BtsI	GCAGTG	1 cut(s)	200
BtsIMutI	CAGTG	4 cut(s)	149, 200, 300, 638
Cac8I	GCNNGC	3 cut(s)	285, 402, 1021
CfoI	GCGC	2 cut(s)	285, 287
Cfr13I	GGNCC	3 cut(s)	475, 625, 794
Cfr42I	CCGCGG	1 cut(s)	266
CseI	GACGC	1 cut(s)	680
Csp6I	GTAC	1 cut(s)	1088
CviAII	CATG	2 cut(s)	250, 1028
CviQI	GTAC	1 cut(s)	1088
DdeI	CTNAG	4 cut(s)	675, 778, 885, 1002
DpnI	GATC	4 cut(s)	766, 891, 963, 1148
DpnII	GATC	4 cut(s)	764, 889, 961, 1146
DriI	GACNNNNNGTC	1 cut(s)	676
Eam1104I	CTCTTC	2 cut(s)	76, 86
Eam1105I	GACNNNNNGTC	1 cut(s)	676
EarI	CTCTTC	2 cut(s)	76, 86
Eco130I	CCWWGG	1 cut(s)	588
Eco47I	GGWCC	3 cut(s)	475, 625, 794
Eco88I	CYCGRG	1 cut(s)	277
Eco91I	GGTNACC	1 cut(s)	808
EcoO65I	GGTNACC	1 cut(s)	808
EcoT14I	CCWWGG	1 cut(s)	588
ErhI	CCWWGG	1 cut(s)	588
FaeI	CATG	2 cut(s)	253, 1031
FaqI	GGGAC	3 cut(s)	241, 346, 611
FatI	CATG	2 cut(s)	249, 1027
Fnu4HI	GCNGC	5 cut(s)	48, 198, 263, 618, 843
FokI	GGATG	4 cut(s)	470, 516, 605, 815
Fsp4HI	GCNGC	5 cut(s)	48, 198, 263, 618, 843
GlaI	GCGC	2 cut(s)	284, 286
GluI	GCNGC	5 cut(s)	48, 198, 263, 618, 843
GsuI	CTGGAG	1 cut(s)	357
HgaI	GACGC	1 cut(s)	680
HhaI	GCGC	2 cut(s)	285, 287
Hin1II	CATG	2 cut(s)	253, 1031
Hin6I	GCGC	2 cut(s)	283, 285
HinP1I	GCGC	2 cut(s)	283, 285
HincII	GTYRAC	1 cut(s)	565
HindII	GTYRAC	1 cut(s)	565
HindIII	AAGCTT	2 cut(s)	314, 431
HinfI	GANTC	4 cut(s)	245, 491, 834, 998
HphI	GGTGA	4 cut(s)	46, 149, 802, 937
Hpy166II	GTNNAC	5 cut(s)	8, 54, 505, 565, 638
Hpy188I	TCNGA	3 cut(s)	573, 894, 1003
Hpy188III	TCNNGA	3 cut(s)	455, 681, 1150
Hpy8I	GTNNAC	5 cut(s)	8, 54, 505, 565, 638
Hpy99I	CGWCG	1 cut(s)	124
HpyAV	CCTTC	4 cut(s)	489, 527, 949, 1040
HpyCH4III	ACNGT	3 cut(s)	35, 975, 1104
HpyF10VI	GCNNNNNNNGC	2 cut(s)	47, 282
HpyF3I	CTNAG	4 cut(s)	675, 778, 885, 1002
Hsp92II	CATG	2 cut(s)	253, 1031
HspAI	GCGC	2 cut(s)	283, 285
KspI	CCGCGG	1 cut(s)	266
Kzo9I	GATC	4 cut(s)	764, 889, 961, 1146
LmnI	GCTCC	1 cut(s)	311
Lsp1109I	GCAGC	3 cut(s)	184, 604, 854
LweI	GCATC	4 cut(s)	163, 184, 392, 538
MaeIII	GTNAC	1 cut(s)	808
MalI	GATC	4 cut(s)	766, 891, 963, 1148
MboI	GATC	4 cut(s)	764, 889, 961, 1146
MfeI	CAATTG	2 cut(s)	651, 1013
MflI	RGATCY	1 cut(s)	1146
MhlI	GDGCHC	1 cut(s)	243
MluCI	AATT	8 cut(s)	357, 535, 597, 651, 708, 935, 1013, 1181
MmeI	TCCRAC	1 cut(s)	453
MroXI	GAANNNNTTC	1 cut(s)	516
MseI	TTAA	2 cut(s)	722, 879
MspA1I	CMGCKG	2 cut(s)	265, 845
MspCI	CTTAAG	1 cut(s)	878
MunI	CAATTG	2 cut(s)	651, 1013
Mva1269I	GAATGC	1 cut(s)	472
MvnI	CGCG	2 cut(s)	265, 285
MwoI	GCNNNNNNNGC	2 cut(s)	47, 282
NdeII	GATC	4 cut(s)	764, 889, 961, 1146
NlaIII	CATG	2 cut(s)	253, 1031
NlaIV	GGNNCC	4 cut(s)	307, 477, 586, 627
NmuCI	GTSAC	1 cut(s)	808
PaeR7I	CTCGAG	1 cut(s)	277
PauI	GCGCGC	1 cut(s)	283
PctI	GAATGC	1 cut(s)	472
PdmI	GAANNNNTTC	1 cut(s)	516
PfeI	GAWTC	4 cut(s)	245, 491, 834, 998
PkrI	GCNGC	5 cut(s)	49, 199, 264, 619, 844
PsiI	TTATAA	1 cut(s)	752
PspEI	GGTNACC	1 cut(s)	808
PspN4I	GGNNCC	4 cut(s)	307, 477, 586, 627
PspPI	GGNCC	3 cut(s)	475, 625, 794
PspXI	VCTCGAGB	1 cut(s)	277
PsuI	RGATCY	1 cut(s)	1146
PteI	GCGCGC	1 cut(s)	283
PvuII	CAGCTG	1 cut(s)	845
RsaI	GTAC	1 cut(s)	1089
RsaNI	GTAC	1 cut(s)	1088
SacII	CCGCGG	1 cut(s)	266
SaqAI	TTAA	2 cut(s)	722, 879
SatI	GCNGC	5 cut(s)	48, 198, 263, 618, 843
Sau3AI	GATC	4 cut(s)	764, 889, 961, 1146
Sau96I	GGNCC	3 cut(s)	475, 625, 794
SduI	GDGCHC	1 cut(s)	243
SfaNI	GCATC	4 cut(s)	163, 184, 392, 538
Sfr274I	CTCGAG	1 cut(s)	277
Sfr303I	CCGCGG	1 cut(s)	266
SgrBI	CCGCGG	1 cut(s)	266
SinI	GGWCC	3 cut(s)	475, 625, 794
SlaI	CTCGAG	1 cut(s)	277
SmlI	CTYRAG	6 cut(s)	277, 641, 732, 829, 878, 1150
SmoI	CTYRAG	6 cut(s)	277, 641, 732, 829, 878, 1150
Sse9I	AATT	8 cut(s)	357, 535, 597, 651, 708, 935, 1013, 1181
SsiI	CCGC	3 cut(s)	47, 263, 265
StyI	CCWWGG	1 cut(s)	588
TaaI	ACNGT	3 cut(s)	35, 975, 1104
TaqI	TCGA	3 cut(s)	119, 278, 850
TasI	AATT	8 cut(s)	357, 535, 597, 651, 708, 935, 1013, 1181
TatI	WGTACW	1 cut(s)	1087
TauI	GCSGC	2 cut(s)	50, 265
TfiI	GAWTC	4 cut(s)	245, 491, 834, 998
Tru1I	TTAA	2 cut(s)	722, 879
Tru9I	TTAA	2 cut(s)	722, 879
TscAI	CASTG	4 cut(s)	156, 207, 307, 638
TseFI	GTSAC	1 cut(s)	808
TseI	GCWGC	3 cut(s)	197, 617, 842
Tsp45I	GTSAC	1 cut(s)	808
TspDTI	ATGAA	3 cut(s)	701, 708, 965
TspGWI	ACGGA	2 cut(s)	718, 904
TspRI	CASTG	4 cut(s)	156, 207, 307, 638
Vha464I	CTTAAG	1 cut(s)	878
VpaK11BI	GGWCC	3 cut(s)	475, 625, 794
XapI	RAATTY	1 cut(s)	708
XhoI	CTCGAG	1 cut(s)	277
XmnI	GAANNNNTTC	1 cut(s)	516

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