Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0002620

Physical Location & Seq

Genomic Coordinates Forward (+)

58123899 .. 58126044

Gene Structure 2146 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000030236

Sequence Viewer

CDS Protein Promoter (2k)

Length: 594 bp

ATGGAGGATGATGGCTCAGTCCCCAGACACTCGTGCTTAAAGCTGGAGCCGAGAGAATCCCAACCCATCTTCGTTAAGGGCACATGGTTCGACTCCCGCTTCGACCTCTCCATCACCGACGGCCTCAACGCCTGGGTTTGCCATGCCTCCGAAGACGCGGTTAGAGACCGAGCCGCCCAGTGGGACCAGCCGGTCTCGGAGTACGTCTCATTAGCCGAGCGCTATTTAGGGTTTCAGCACTCTGATTCCGTCTACGGATTCACTGATGCTGGCGATGGCCACAAAAGGTTGTCTTGGACTTTTGAGAAGGAAGGGACGAAGCTAGAATGGCGGTGGAAGTGTCAACCATCGCCTAACAGTAAGGAAACGACAGCTGCAGTGTTGGATTTTCTGATGGATGCAAATGTTAAACTAAGAGAGCTTCGGGACAAGCTTTCAAAACAAGAAGTGGCTGGGAAACTGCCACAAGAAGAGGAAGAGAGCACAGACAAAACTGAAACTTATGTCAGTGATGATGAGAATAGTGAGGTAGAATCCTTGAAAGATCTTCCAGCTACCTCCAAGGATATTCCATCTAGTAGGTCTCGAGGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000726 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006303 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009987 GO:0033554 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044260 GO:0044424 GO:0044464 GO:0046483 GO:0050896 GO:0051716 GO:0071704 GO:0090304 GO:1901360

KEGG Pathways

Metabolic & Signaling

ko03450 map03450

Pfam Domains

Protein Families

XRCC4

Protein Analysis

198

Amino Acids

22.39

Weight (kDa)

4.79

Isoelectric Point (pI)

52.47

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
XLF	PF09302	17 - 115	1.8e-06	XLF N-terminal domain
XRCC4	PF06632	22 - 117	1.6e-28	XRCC4 N-terminal 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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Orthologous Genes (Group: OG0002620)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G61410 AT3G23100 AT3G23100
fragaria_vesca	FvH4_2g07190 FvH4_2g07190
malus_domestica	MD13G1208000.v1.1
prunus_persica	Prupe.1G031500_v2.0.a1 Prupe.1G031500_v2.0.a1 Prupe.1G031500_v2.0.a1
pyrus_communis	pycom13g18010
rosa_chinensis	RchiOBHm_Chr1g0323991
rosa_laevigata	RLG00000030236
rosa_multiflora	Rmu_sc0001861.1_g000102 Rmu_sc0002529.1_g000031 Rmu_sc0003452.1_g000009 Rmu_sc0005177.1_g000001 Rmu_sc0006175.1_g000019
rosa_roxburghii	Rroxscaffold_160G00433790 Rroxscaffold_2G00104220 Rroxscaffold_4G00325990 Rroxscaffold_4G00328010 Rroxscaffold_4G00328020
rosa_rugosa	Rorug01G0031900 Rorug01G0041300 Rorug03G0294600
rosa_samantha	Rh1AG043800 Rh1AG059000 Rh1BG041300 Rh1CG046300 Rh1CG061100 Rh1DG051000 Rh1DG065200 Rh4BG282000 Rh5AG329500 Rh7AG348000 Rh7CG365400 Rh7CG365500
rosa_wichuraiana	Rw1G003850 Rw1G005060 Rw4G020960

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	191
AccI	GTMKAC	1 cut(s)	252
AccII	CGCG	1 cut(s)	158
AciI	CCGC	4 cut(s)	97, 158, 174, 331
AcoI	YGGCCR	1 cut(s)	277
AfaI	GTAC	1 cut(s)	203
AfeI	AGCGCT	1 cut(s)	221
AfiI	CCNNNNNNNGG	1 cut(s)	180
AgsI	TTSAA	2 cut(s)	438, 541
AjnI	CCWGG	1 cut(s)	131
AluBI	AGCT	6 cut(s)	43, 322, 374, 421, 433, 554
AluI	AGCT	6 cut(s)	43, 322, 374, 421, 433, 554
Alw21I	GWGCWC	1 cut(s)	485
Alw26I	GTCTC	4 cut(s)	159, 199, 211, 588
Ama87I	CYCGRG	1 cut(s)	585
Aor51HI	AGCGCT	1 cut(s)	221
AoxI	GGCC	2 cut(s)	121, 277
ApeKI	GCWGC	1 cut(s)	374
ArsI	GACNNNNNNTTYG	2 cut(s)	83, 115
AspLEI	GCGC	1 cut(s)	222
AspS9I	GGNCC	1 cut(s)	184
AsuHPI	GGTGA	1 cut(s)	106
AvaI	CYCGRG	1 cut(s)	585
AvaII	GGWCC	1 cut(s)	184
BaeGI	GKGCMC	1 cut(s)	83
BalI	TGGCCA	1 cut(s)	279
BauI	CACGAG	1 cut(s)	31
BbsI	GAAGAC	1 cut(s)	159
Bbv12I	GWGCWC	1 cut(s)	485
BbvI	GCAGC	1 cut(s)	361
BccI	CCATC	7 cut(s)	5, 74, 119, 269, 355, 388, 580
BceAI	ACGGC	1 cut(s)	136
BcgI	CGANNNNNNTGC	2 cut(s)	70, 104
BciT130I	CCWGG	1 cut(s)	133
BcoDI	GTCTC	4 cut(s)	159, 199, 211, 588
BfaI	CTAG	2 cut(s)	323, 576
BfmI	CTRYAG	1 cut(s)	375
BfoI	RGCGCY	1 cut(s)	223
BglII	AGATCT	1 cut(s)	544
BisI	GCNGC	2 cut(s)	174, 375
BlsI	GCNGC	2 cut(s)	175, 376
Bme1390I	CCNGG	1 cut(s)	133
Bme18I	GGWCC	1 cut(s)	184
BmeT110I	CYCGRG	1 cut(s)	585
BmgT120I	GGNCC	1 cut(s)	184
BmiI	GGNNCC	2 cut(s)	48, 185
BmrFI	CCNGG	1 cut(s)	133
BmrI	ACTGGG	1 cut(s)	172
BmsI	GCATC	2 cut(s)	256, 388
BmuI	ACTGGG	1 cut(s)	172
BpiI	GAAGAC	1 cut(s)	159
BplI	GAGNNNNNCTC	2 cut(s)	191, 223
BpmI	CTGGAG	1 cut(s)	65
BsaI	GGTCTC	3 cut(s)	159, 199, 588
BsaJI	CCNNGG	2 cut(s)	132, 561
Bsc4I	CCNNNNNNNGG	1 cut(s)	180
Bse118I	RCCGGY	1 cut(s)	190
Bse1I	ACTGG	1 cut(s)	178
BseBI	CCWGG	1 cut(s)	133
BseDI	CCNNGG	2 cut(s)	132, 561
BseGI	GGATG	2 cut(s)	13, 403
BseLI	CCNNNNNNNGG	1 cut(s)	180
BseMII	CTCAG	1 cut(s)	30
BseNI	ACTGG	1 cut(s)	178
BseSI	GKGCMC	1 cut(s)	83
BseXI	GCAGC	1 cut(s)	361
BseYI	CCCAGC	1 cut(s)	452
Bsh1236I	CGCG	1 cut(s)	158
BshFI	GGCC	2 cut(s)	123, 279
BsiHKAI	GWGCWC	1 cut(s)	485
BsiHKCI	CYCGRG	1 cut(s)	585
BsiSI	CCGG	1 cut(s)	191
BslFI	GGGAC	4 cut(s)	5, 197, 328, 440
BslI	CCNNNNNNNGG	1 cut(s)	180
BsmAI	GTCTC	4 cut(s)	159, 199, 211, 588
BsmBI	CGTCTC	1 cut(s)	211
BsmFI	GGGAC	4 cut(s)	5, 197, 328, 440
BsnI	GGCC	2 cut(s)	123, 279
Bso31I	GGTCTC	3 cut(s)	159, 199, 588
BsoBI	CYCGRG	1 cut(s)	585
Bsp1286I	GDGCHC	2 cut(s)	83, 485
Bsp143I	GATC	1 cut(s)	544
BspACI	CCGC	4 cut(s)	97, 158, 174, 331
BspANI	GGCC	2 cut(s)	123, 279
BspCNI	CTCAG	1 cut(s)	29
BspFNI	CGCG	1 cut(s)	158
BspLI	GGNNCC	2 cut(s)	48, 185
BspMAI	CTGCAG	1 cut(s)	379
BspTNI	GGTCTC	3 cut(s)	159, 199, 588
BsrFI	RCCGGY	1 cut(s)	190
BsrI	ACTGG	1 cut(s)	178
BssAI	RCCGGY	1 cut(s)	190
BssECI	CCNNGG	2 cut(s)	132, 561
BssMI	GATC	1 cut(s)	544
BssSI	CACGAG	1 cut(s)	31
BssT1I	CCWWGG	1 cut(s)	561
Bst2BI	CACGAG	1 cut(s)	31
Bst2UI	CCWGG	1 cut(s)	133
Bst4CI	ACNGT	1 cut(s)	359
Bst6I	CTCTTC	2 cut(s)	465, 471
BstC8I	GCNNGC	1 cut(s)	271
BstDEI	CTNAG	2 cut(s)	16, 413
BstF5I	GGATG	2 cut(s)	13, 403
BstFNI	CGCG	1 cut(s)	158
BstH2I	RGCGCY	1 cut(s)	223
BstHHI	GCGC	1 cut(s)	222
BstKTI	GATC	1 cut(s)	547
BstMAI	GTCTC	4 cut(s)	159, 199, 211, 588
BstMBI	GATC	1 cut(s)	544
BstMWI	GCNNNNNNNGC	1 cut(s)	328
BstNI	CCWGG	1 cut(s)	133
BstSCI	CCNGG	1 cut(s)	131
BstSFI	CTRYAG	1 cut(s)	375
BstSLI	GKGCMC	1 cut(s)	83
BstUI	CGCG	1 cut(s)	158
BstV1I	GCAGC	1 cut(s)	361
BstV2I	GAAGAC	1 cut(s)	159
BstX2I	RGATCY	1 cut(s)	544
BstYI	RGATCY	1 cut(s)	544
BsuRI	GGCC	2 cut(s)	123, 279
BtgZI	GCGATG	2 cut(s)	288, 333
BtsCI	GGATG	2 cut(s)	13, 403
BtsI	GCAGTG	1 cut(s)	384
BtsIMutI	CAGTG	4 cut(s)	185, 261, 384, 514
Cac8I	GCNNGC	1 cut(s)	271
CfoI	GCGC	1 cut(s)	222
Cfr10I	RCCGGY	1 cut(s)	190
Cfr13I	GGNCC	1 cut(s)	184
CseI	GACGC	1 cut(s)	164
Csp6I	GTAC	1 cut(s)	202
CviAII	CATG	2 cut(s)	84, 143
CviQI	GTAC	1 cut(s)	202
DdeI	CTNAG	2 cut(s)	16, 413
DpnI	GATC	1 cut(s)	546
DpnII	GATC	1 cut(s)	544
DrdI	GACNNNNNNGTC	1 cut(s)	191
DseDI	GACNNNNNNGTC	1 cut(s)	191
EaeI	YGGCCR	1 cut(s)	277
Eam1104I	CTCTTC	2 cut(s)	465, 471
EarI	CTCTTC	2 cut(s)	465, 471
Eco130I	CCWWGG	1 cut(s)	561
Eco31I	GGTCTC	3 cut(s)	159, 199, 588
Eco47I	GGWCC	1 cut(s)	184
Eco47III	AGCGCT	1 cut(s)	221
Eco88I	CYCGRG	1 cut(s)	585
EcoRII	CCWGG	1 cut(s)	131
EcoT14I	CCWWGG	1 cut(s)	561
ErhI	CCWWGG	1 cut(s)	561
Esp3I	CGTCTC	1 cut(s)	211
FaeI	CATG	2 cut(s)	87, 146
FaiI	YATR	3 cut(s)	85, 144, 504
FalI	AAGNNNNNCTT	2 cut(s)	277, 309
FaqI	GGGAC	4 cut(s)	5, 197, 328, 440
FatI	CATG	2 cut(s)	83, 142
FauI	CCCGC	1 cut(s)	104
FblI	GTMKAC	1 cut(s)	252
Fnu4HI	GCNGC	2 cut(s)	174, 375
FokI	GGATG	2 cut(s)	20, 410
Fsp4HI	GCNGC	2 cut(s)	174, 375
FspBI	CTAG	2 cut(s)	323, 576
GlaI	GCGC	1 cut(s)	221
GluI	GCNGC	2 cut(s)	174, 375
GsaI	CCCAGC	1 cut(s)	456
GsuI	CTGGAG	1 cut(s)	65
HaeII	RGCGCY	1 cut(s)	223
HaeIII	GGCC	2 cut(s)	123, 279
HapII	CCGG	1 cut(s)	191
HgaI	GACGC	1 cut(s)	164
HhaI	GCGC	1 cut(s)	222
Hin1II	CATG	2 cut(s)	87, 146
Hin6I	GCGC	1 cut(s)	220
HinP1I	GCGC	1 cut(s)	220
HincII	GTYRAC	1 cut(s)	344
HindII	GTYRAC	1 cut(s)	344
HindIII	AAGCTT	1 cut(s)	431
HinfI	GANTC	5 cut(s)	56, 92, 245, 258, 533
HpaII	CCGG	1 cut(s)	191
HphI	GGTGA	1 cut(s)	106
Hpy166II	GTNNAC	2 cut(s)	253, 344
Hpy188I	TCNGA	4 cut(s)	151, 199, 244, 393
Hpy188III	TCNNGA	2 cut(s)	425, 585
Hpy8I	GTNNAC	2 cut(s)	253, 344
Hpy99I	CGWCG	1 cut(s)	122
HpyAV	CCTTC	2 cut(s)	301, 305
HpyCH4III	ACNGT	1 cut(s)	359
HpyCH4IV	ACGT	1 cut(s)	204
HpyCH4V	TGCA	2 cut(s)	377, 401
HpyF10VI	GCNNNNNNNGC	1 cut(s)	328
HpyF3I	CTNAG	2 cut(s)	16, 413
HpySE526I	ACGT	1 cut(s)	204
Hsp92II	CATG	2 cut(s)	87, 146
HspAI	GCGC	1 cut(s)	220
Kzo9I	GATC	1 cut(s)	544
LmnI	GCTCC	1 cut(s)	46
Lsp1109I	GCAGC	1 cut(s)	361
LweI	GCATC	2 cut(s)	256, 388
MaeI	CTAG	2 cut(s)	323, 576
MaeII	ACGT	1 cut(s)	204
MalI	GATC	1 cut(s)	546
MboI	GATC	1 cut(s)	544
MboII	GAAGA	5 cut(s)	61, 164, 482, 488, 539
MflI	RGATCY	1 cut(s)	544
MhlI	GDGCHC	2 cut(s)	83, 485
MlsI	TGGCCA	1 cut(s)	279
MluNI	TGGCCA	1 cut(s)	279
MlyI	GAGTC	1 cut(s)	86
MmeI	TCCRAC	1 cut(s)	363
MnlI	CCTC	7 cut(s)	116, 134, 157, 466, 520, 568, 581
Mox20I	TGGCCA	1 cut(s)	279
MscI	TGGCCA	1 cut(s)	279
MseI	TTAA	3 cut(s)	38, 75, 408
Msp20I	TGGCCA	1 cut(s)	279
MspA1I	CMGCKG	1 cut(s)	374
MspI	CCGG	1 cut(s)	191
MspR9I	CCNGG	1 cut(s)	133
MvaI	CCWGG	1 cut(s)	133
MvnI	CGCG	1 cut(s)	158
MwoI	GCNNNNNNNGC	1 cut(s)	328
NdeII	GATC	1 cut(s)	544
NlaIII	CATG	2 cut(s)	87, 146
NlaIV	GGNNCC	2 cut(s)	48, 185
NmeAIII	GCCGAG	2 cut(s)	75, 241
PaeR7I	CTCGAG	1 cut(s)	585
PfeI	GAWTC	4 cut(s)	56, 245, 258, 533
PkrI	GCNGC	2 cut(s)	175, 376
PleI	GAGTC	1 cut(s)	86
PpsI	GAGTC	1 cut(s)	86
Psp6I	CCWGG	1 cut(s)	131
PspFI	CCCAGC	1 cut(s)	452
PspGI	CCWGG	1 cut(s)	131
PspN4I	GGNNCC	2 cut(s)	48, 185
PspPI	GGNCC	1 cut(s)	184
PstI	CTGCAG	1 cut(s)	379
PsuI	RGATCY	1 cut(s)	544
PvuII	CAGCTG	1 cut(s)	374
RsaI	GTAC	1 cut(s)	203
RsaNI	GTAC	1 cut(s)	202
SaqAI	TTAA	3 cut(s)	38, 75, 408
SatI	GCNGC	2 cut(s)	174, 375
Sau3AI	GATC	1 cut(s)	544
Sau96I	GGNCC	1 cut(s)	184
SchI	GAGTC	1 cut(s)	86
ScrFI	CCNGG	1 cut(s)	133
SduI	GDGCHC	2 cut(s)	83, 485
SfaNI	GCATC	2 cut(s)	256, 388
SfcI	CTRYAG	1 cut(s)	375
Sfr274I	CTCGAG	1 cut(s)	585
SinI	GGWCC	1 cut(s)	184
SlaI	CTCGAG	1 cut(s)	585
SmlI	CTYRAG	1 cut(s)	585
SmoI	CTYRAG	1 cut(s)	585
SsiI	CCGC	4 cut(s)	97, 158, 174, 331
SspMI	CTAG	2 cut(s)	323, 576
StyD4I	CCNGG	1 cut(s)	131
StyI	CCWWGG	1 cut(s)	561
TaaI	ACNGT	1 cut(s)	359
TaiI	ACGT	1 cut(s)	207
TaqI	TCGA	3 cut(s)	90, 102, 586
TaqII	GACCGA	1 cut(s)	183
TauI	GCSGC	1 cut(s)	176
TfiI	GAWTC	4 cut(s)	56, 245, 258, 533
Tru1I	TTAA	3 cut(s)	38, 75, 408
Tru9I	TTAA	3 cut(s)	38, 75, 408
TscAI	CASTG	4 cut(s)	185, 268, 384, 514
TseI	GCWGC	1 cut(s)	374
TspGWI	ACGGA	2 cut(s)	238, 270
TspRI	CASTG	4 cut(s)	185, 268, 384, 514
VpaK11BI	GGWCC	1 cut(s)	184
XhoI	CTCGAG	1 cut(s)	585
XmiI	GTMKAC	1 cut(s)	252
XspI	CTAG	2 cut(s)	323, 576

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