Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr4

Orthogroup ID

OG0002620

Physical Location & Seq

Genomic Coordinates Reverse (-)

45108103 .. 45114617

Gene Structure 6515 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw4G020960.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 456 bp

ATGGTGAGTTCAGCAATCCATGAGCTCTTCGAGTCCCGCTTCGACCTCTCCATCACCAACGGCCTCAACGCCTGGGTCTGCCATACCTCCGAAGACGCACCGGTATCAGAGTACATCTCATTAGCCGAGCACTATATAGGGTTTCAGCACTCTGATTCCGTCTACGGATTCACTGACGCTGGCAATGGCCACAGAAGGTTGTCATGGACTTTTGAGAAGGAAGGGACGAAGCTAGAATGTAAGGAAACAACAGCTACAGTGTTGGATTTTCTGATGGATGCAAATGTTGGGCTAAGTTTTCTTGGGGTCTTGAATCCAAAGAAGGCTAAACTAAGAGAGCTTCGGGACAAGCTCTCAAAACAAGAAGCTGCTGGGAAACTCACACTTGTCCATCCAAATTTCAGCATGTTTCTATCTAGTAGGTCTCGAGGTCGAAAGAGGGCATTGGAGAAATAG

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

151

Amino Acids

16.97

Weight (kDa)

7.83

Isoelectric Point (pI)

35.82

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
XRCC4	PF06632	8 - 80	5e-10	XRCC4 N-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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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)
AccI	GTMKAC	1 cut(s)	162
AciI	CCGC	1 cut(s)	37
AcoI	YGGCCR	1 cut(s)	187
AcsI	RAATTY	1 cut(s)	397
AfaI	GTAC	1 cut(s)	113
AgeI	ACCGGT	1 cut(s)	100
AgsI	TTSAA	1 cut(s)	313
AjnI	CCWGG	1 cut(s)	71
AluBI	AGCT	6 cut(s)	25, 232, 254, 340, 352, 368
AluI	AGCT	6 cut(s)	25, 232, 254, 340, 352, 368
Alw21I	GWGCWC	2 cut(s)	27, 132
Alw26I	GTCTC	1 cut(s)	429
Ama87I	CYCGRG	1 cut(s)	426
AoxI	GGCC	2 cut(s)	61, 187
ApeKI	GCWGC	1 cut(s)	368
ApoI	RAATTY	1 cut(s)	397
AsiGI	ACCGGT	1 cut(s)	100
AsuHPI	GGTGA	2 cut(s)	16, 46
AvaI	CYCGRG	1 cut(s)	426
BalI	TGGCCA	1 cut(s)	189
BanII	GRGCYC	1 cut(s)	27
BbsI	GAAGAC	1 cut(s)	99
Bbv12I	GWGCWC	2 cut(s)	27, 132
BbvI	GCAGC	1 cut(s)	355
BccI	CCATC	3 cut(s)	59, 268, 399
BceAI	ACGGC	1 cut(s)	76
BciT130I	CCWGG	1 cut(s)	73
BcoDI	GTCTC	1 cut(s)	429
BfaI	CTAG	2 cut(s)	233, 417
BfmI	CTRYAG	1 cut(s)	255
BisI	GCNGC	1 cut(s)	369
BlsI	GCNGC	1 cut(s)	370
Bme1390I	CCNGG	1 cut(s)	73
BmeT110I	CYCGRG	1 cut(s)	426
BmrFI	CCNGG	1 cut(s)	73
BmsI	GCATC	1 cut(s)	268
BpiI	GAAGAC	1 cut(s)	99
BplI	GAGNNNNNCTC	2 cut(s)	101, 133
BsaI	GGTCTC	1 cut(s)	429
BsaJI	CCNNGG	1 cut(s)	72
BsaWI	WCCGGW	1 cut(s)	100
Bse118I	RCCGGY	1 cut(s)	100
Bse3DI	GCAATG	1 cut(s)	190
BseBI	CCWGG	1 cut(s)	73
BseDI	CCNNGG	1 cut(s)	72
BseGI	GGATG	2 cut(s)	283, 391
BseMI	GCAATG	1 cut(s)	190
BseXI	GCAGC	1 cut(s)	355
BseYI	CCCAGC	1 cut(s)	371
BshFI	GGCC	2 cut(s)	63, 189
BshTI	ACCGGT	1 cut(s)	100
BsiHKAI	GWGCWC	2 cut(s)	27, 132
BsiHKCI	CYCGRG	1 cut(s)	426
BsiSI	CCGG	1 cut(s)	101
BslFI	GGGAC	3 cut(s)	19, 238, 359
BsmAI	GTCTC	1 cut(s)	429
BsmFI	GGGAC	3 cut(s)	19, 238, 359
BsnI	GGCC	2 cut(s)	63, 189
Bso31I	GGTCTC	1 cut(s)	429
BsoBI	CYCGRG	1 cut(s)	426
Bsp1286I	GDGCHC	2 cut(s)	27, 132
BspACI	CCGC	1 cut(s)	37
BspANI	GGCC	2 cut(s)	63, 189
BspQI	GCTCTTC	1 cut(s)	32
BspTNI	GGTCTC	1 cut(s)	429
BsrDI	GCAATG	1 cut(s)	190
BsrFI	RCCGGY	1 cut(s)	100
BssAI	RCCGGY	1 cut(s)	100
BssECI	CCNNGG	1 cut(s)	72
Bst2UI	CCWGG	1 cut(s)	73
Bst4CI	ACNGT	1 cut(s)	259
Bst6I	CTCTTC	1 cut(s)	32
BstC8I	GCNNGC	1 cut(s)	181
BstDEI	CTNAG	2 cut(s)	293, 332
BstF5I	GGATG	2 cut(s)	283, 391
BstMAI	GTCTC	1 cut(s)	429
BstNI	CCWGG	1 cut(s)	73
BstNSI	RCATGY	1 cut(s)	409
BstSCI	CCNGG	1 cut(s)	71
BstSFI	CTRYAG	1 cut(s)	255
BstV1I	GCAGC	1 cut(s)	355
BstV2I	GAAGAC	1 cut(s)	99
BsuRI	GGCC	2 cut(s)	63, 189
BtsCI	GGATG	2 cut(s)	283, 391
BtsIMutI	CAGTG	2 cut(s)	171, 264
Cac8I	GCNNGC	1 cut(s)	181
Cfr10I	RCCGGY	1 cut(s)	100
CseI	GACGC	2 cut(s)	104, 185
Csp6I	GTAC	1 cut(s)	112
CspAI	ACCGGT	1 cut(s)	100
CviAII	CATG	3 cut(s)	20, 204, 406
CviQI	GTAC	1 cut(s)	112
DdeI	CTNAG	2 cut(s)	293, 332
EaeI	YGGCCR	1 cut(s)	187
Eam1104I	CTCTTC	1 cut(s)	32
EarI	CTCTTC	1 cut(s)	32
Ecl136II	GAGCTC	1 cut(s)	25
Eco24I	GRGCYC	1 cut(s)	27
Eco31I	GGTCTC	1 cut(s)	429
Eco53kI	GAGCTC	1 cut(s)	25
Eco88I	CYCGRG	1 cut(s)	426
EcoICRI	GAGCTC	1 cut(s)	25
EcoRII	CCWGG	1 cut(s)	71
EcoT38I	GRGCYC	1 cut(s)	27
FaeI	CATG	3 cut(s)	23, 207, 409
FaiI	YATR	6 cut(s)	21, 84, 135, 137, 205, 407
FaqI	GGGAC	3 cut(s)	19, 238, 359
FatI	CATG	3 cut(s)	19, 203, 405
FauI	CCCGC	1 cut(s)	44
FblI	GTMKAC	1 cut(s)	162
Fnu4HI	GCNGC	1 cut(s)	369
FokI	GGATG	2 cut(s)	290, 378
FriOI	GRGCYC	1 cut(s)	27
Fsp4HI	GCNGC	1 cut(s)	369
FspBI	CTAG	2 cut(s)	233, 417
GluI	GCNGC	1 cut(s)	369
GsaI	CCCAGC	1 cut(s)	375
HaeIII	GGCC	2 cut(s)	63, 189
HapII	CCGG	1 cut(s)	101
HgaI	GACGC	2 cut(s)	104, 185
Hin1II	CATG	3 cut(s)	23, 207, 409
HinfI	GANTC	4 cut(s)	32, 155, 168, 313
HpaII	CCGG	1 cut(s)	101
HphI	GGTGA	2 cut(s)	16, 46
Hpy166II	GTNNAC	1 cut(s)	163
Hpy188I	TCNGA	4 cut(s)	91, 109, 154, 273
Hpy188III	TCNNGA	3 cut(s)	310, 344, 426
Hpy8I	GTNNAC	1 cut(s)	163
HpyAV	CCTTC	4 cut(s)	189, 211, 215, 316
HpyCH4III	ACNGT	1 cut(s)	259
HpyCH4V	TGCA	1 cut(s)	281
HpyF3I	CTNAG	2 cut(s)	293, 332
Hsp92II	CATG	3 cut(s)	23, 207, 409
LguI	GCTCTTC	1 cut(s)	32
LpnPI	CCDG	5 cut(s)	58, 85, 114, 165, 357
Lsp1109I	GCAGC	1 cut(s)	355
LweI	GCATC	1 cut(s)	268
MaeI	CTAG	2 cut(s)	233, 417
MboII	GAAGA	2 cut(s)	19, 104
MhlI	GDGCHC	2 cut(s)	27, 132
MlsI	TGGCCA	1 cut(s)	189
MluCI	AATT	1 cut(s)	397
MluNI	TGGCCA	1 cut(s)	189
MlyI	GAGTC	1 cut(s)	41
MmeI	TCCRAC	1 cut(s)	243
MnlI	CCTC	5 cut(s)	56, 74, 97, 422, 432
Mox20I	TGGCCA	1 cut(s)	189
MscI	TGGCCA	1 cut(s)	189
Msp20I	TGGCCA	1 cut(s)	189
MspI	CCGG	1 cut(s)	101
MspR9I	CCNGG	1 cut(s)	73
MvaI	CCWGG	1 cut(s)	73
NlaIII	CATG	3 cut(s)	23, 207, 409
NmeAIII	GCCGAG	1 cut(s)	151
NspI	RCATGY	1 cut(s)	409
PaeR7I	CTCGAG	1 cut(s)	426
PciSI	GCTCTTC	1 cut(s)	32
PfeI	GAWTC	3 cut(s)	155, 168, 313
PinAI	ACCGGT	1 cut(s)	100
PkrI	GCNGC	1 cut(s)	370
PleI	GAGTC	1 cut(s)	40
PpsI	GAGTC	1 cut(s)	40
Psp124BI	GAGCTC	1 cut(s)	27
Psp6I	CCWGG	1 cut(s)	71
PspFI	CCCAGC	1 cut(s)	371
PspGI	CCWGG	1 cut(s)	71
RsaI	GTAC	1 cut(s)	113
RsaNI	GTAC	1 cut(s)	112
SacI	GAGCTC	1 cut(s)	27
SapI	GCTCTTC	1 cut(s)	32
SatI	GCNGC	1 cut(s)	369
SchI	GAGTC	1 cut(s)	41
ScrFI	CCNGG	1 cut(s)	73
SduI	GDGCHC	2 cut(s)	27, 132
SfaNI	GCATC	1 cut(s)	268
SfcI	CTRYAG	1 cut(s)	255
Sfr274I	CTCGAG	1 cut(s)	426
SlaI	CTCGAG	1 cut(s)	426
SmlI	CTYRAG	1 cut(s)	426
SmoI	CTYRAG	1 cut(s)	426
Sse9I	AATT	1 cut(s)	397
SsiI	CCGC	1 cut(s)	37
SspMI	CTAG	2 cut(s)	233, 417
SstI	GAGCTC	1 cut(s)	27
StyD4I	CCNGG	1 cut(s)	71
TaaI	ACNGT	1 cut(s)	259
TaqI	TCGA	4 cut(s)	30, 42, 427, 433
TasI	AATT	1 cut(s)	397
TatI	WGTACW	1 cut(s)	111
TfiI	GAWTC	3 cut(s)	155, 168, 313
TscAI	CASTG	2 cut(s)	178, 264
TseI	GCWGC	1 cut(s)	368
TspGWI	ACGGA	2 cut(s)	148, 180
TspRI	CASTG	2 cut(s)	178, 264
XapI	RAATTY	1 cut(s)	397
XceI	RCATGY	1 cut(s)	409
XhoI	CTCGAG	1 cut(s)	426
XmiI	GTMKAC	1 cut(s)	162
XspI	CTAG	2 cut(s)	233, 417

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