Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0002620

Physical Location & Seq

Genomic Coordinates Forward (+)

60885573 .. 60888939

Gene Structure 3367 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00328010.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 357 bp

ATGAAGAGGTTATCTTTTATGCTTCCGGTAAGGTTCGGTGAAATGGTATGTTCAAATAGGCTTGAAATGCTCAAGAAGTGGCTAAACAATAGTAAGATTGTTATGCATGATGATGACTCAGCCCCCAGACACTCGTGCTTAAAGCTAGAACCCAGAGAACCCCAACCCATCTTCGTGAAGGGCATATGGTTTGAGTCCCGCTTCGACCTCTCCATCACGGATGGCCTCAACGCCTGGGTCTGCCATGCCTCCGAAGACGCGGTTAGAGACCGAGCCGCCCAGTGGGACCAGCCGGTATCCGAGTACGTCTCATTAGCCGAGCGCTATTTAGGGTTCCAGCACTCTGCTTCCGTCTAG

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

118

Amino Acids

13.7

Weight (kDa)

6.41

Isoelectric Point (pI)

43.7

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
XRCC4	PF06632	56 - 116	2.8e-18	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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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)
AccII	CGCG	1 cut(s)	260
AciI	CCGC	3 cut(s)	199, 260, 276
AfaI	GTAC	1 cut(s)	305
AfeI	AGCGCT	1 cut(s)	323
AfiI	CCNNNNNNNGG	1 cut(s)	282
AgsI	TTSAA	2 cut(s)	54, 65
AjnI	CCWGG	1 cut(s)	233
AluBI	AGCT	1 cut(s)	145
AluI	AGCT	1 cut(s)	145
Alw26I	GTCTC	2 cut(s)	261, 313
Aor51HI	AGCGCT	1 cut(s)	323
AoxI	GGCC	1 cut(s)	223
AspLEI	GCGC	1 cut(s)	324
AspS9I	GGNCC	1 cut(s)	286
AsuHPI	GGTGA	1 cut(s)	50
AvaII	GGWCC	1 cut(s)	286
BauI	CACGAG	1 cut(s)	133
BbsI	GAAGAC	1 cut(s)	261
BccI	CCATC	3 cut(s)	176, 215, 221
BciT130I	CCWGG	1 cut(s)	235
BciVI	GTATCC	1 cut(s)	307
BcoDI	GTCTC	2 cut(s)	261, 313
BfaI	CTAG	2 cut(s)	146, 355
BfoI	RGCGCY	1 cut(s)	325
BfuI	GTATCC	1 cut(s)	307
BisI	GCNGC	1 cut(s)	276
BlsI	GCNGC	1 cut(s)	277
Bme1390I	CCNGG	1 cut(s)	235
Bme18I	GGWCC	1 cut(s)	286
BmgT120I	GGNCC	1 cut(s)	286
BmiI	GGNNCC	2 cut(s)	287, 335
BmrFI	CCNGG	1 cut(s)	235
BmrI	ACTGGG	1 cut(s)	274
BmuI	ACTGGG	1 cut(s)	274
BpiI	GAAGAC	1 cut(s)	261
BplI	GAGNNNNNCTC	2 cut(s)	293, 325
BpuEI	CTTGAG	1 cut(s)	56
BsaI	GGTCTC	1 cut(s)	261
BsaJI	CCNNGG	1 cut(s)	234
BsaWI	WCCGGW	1 cut(s)	25
Bsc4I	CCNNNNNNNGG	1 cut(s)	282
Bse118I	RCCGGY	1 cut(s)	292
Bse1I	ACTGG	1 cut(s)	280
BseBI	CCWGG	1 cut(s)	235
BseDI	CCNNGG	1 cut(s)	234
BseGI	GGATG	1 cut(s)	226
BseLI	CCNNNNNNNGG	1 cut(s)	282
BseMII	CTCAG	1 cut(s)	132
BseNI	ACTGG	1 cut(s)	280
Bsh1236I	CGCG	1 cut(s)	260
BshFI	GGCC	1 cut(s)	225
BsiSI	CCGG	2 cut(s)	26, 293
BslFI	GGGAC	2 cut(s)	181, 299
BslI	CCNNNNNNNGG	1 cut(s)	282
BsmAI	GTCTC	2 cut(s)	261, 313
BsmBI	CGTCTC	1 cut(s)	313
BsmFI	GGGAC	2 cut(s)	181, 299
BsnI	GGCC	1 cut(s)	225
Bso31I	GGTCTC	1 cut(s)	261
BspACI	CCGC	3 cut(s)	199, 260, 276
BspANI	GGCC	1 cut(s)	225
BspCNI	CTCAG	1 cut(s)	131
BspFNI	CGCG	1 cut(s)	260
BspLI	GGNNCC	2 cut(s)	287, 335
BspTNI	GGTCTC	1 cut(s)	261
BsrFI	RCCGGY	1 cut(s)	292
BsrI	ACTGG	1 cut(s)	280
BssAI	RCCGGY	1 cut(s)	292
BssECI	CCNNGG	1 cut(s)	234
BssSI	CACGAG	1 cut(s)	133
Bst2BI	CACGAG	1 cut(s)	133
Bst2UI	CCWGG	1 cut(s)	235
BstDEI	CTNAG	1 cut(s)	118
BstF5I	GGATG	1 cut(s)	226
BstFNI	CGCG	1 cut(s)	260
BstH2I	RGCGCY	1 cut(s)	325
BstHHI	GCGC	1 cut(s)	324
BstMAI	GTCTC	2 cut(s)	261, 313
BstMWI	GCNNNNNNNGC	1 cut(s)	67
BstNI	CCWGG	1 cut(s)	235
BstSCI	CCNGG	1 cut(s)	233
BstUI	CGCG	1 cut(s)	260
BstV2I	GAAGAC	1 cut(s)	261
BsuI	GTATCC	1 cut(s)	307
BsuRI	GGCC	1 cut(s)	225
BtsCI	GGATG	1 cut(s)	226
BtsIMutI	CAGTG	1 cut(s)	287
CfoI	GCGC	1 cut(s)	324
Cfr10I	RCCGGY	1 cut(s)	292
Cfr13I	GGNCC	1 cut(s)	286
CseI	GACGC	1 cut(s)	266
Csp6I	GTAC	1 cut(s)	304
CviAII	CATG	2 cut(s)	107, 245
CviJI	RGCY	8 cut(s)	61, 82, 122, 145, 225, 275, 292, 317
CviKI_1	RGCY	8 cut(s)	61, 82, 122, 145, 225, 275, 292, 317
CviQI	GTAC	1 cut(s)	304
DdeI	CTNAG	1 cut(s)	118
Eco31I	GGTCTC	1 cut(s)	261
Eco47I	GGWCC	1 cut(s)	286
Eco47III	AGCGCT	1 cut(s)	323
EcoRII	CCWGG	1 cut(s)	233
EcoT22I	ATGCAT	1 cut(s)	108
Esp3I	CGTCTC	1 cut(s)	313
FaeI	CATG	2 cut(s)	110, 248
FaiI	YATR	7 cut(s)	20, 49, 104, 108, 185, 187, 246
FaqI	GGGAC	2 cut(s)	181, 299
FatI	CATG	2 cut(s)	106, 244
FauI	CCCGC	1 cut(s)	206
FauNDI	CATATG	1 cut(s)	185
Fnu4HI	GCNGC	1 cut(s)	276
FokI	GGATG	1 cut(s)	233
Fsp4HI	GCNGC	1 cut(s)	276
FspBI	CTAG	2 cut(s)	146, 355
GlaI	GCGC	1 cut(s)	323
GluI	GCNGC	1 cut(s)	276
HaeII	RGCGCY	1 cut(s)	325
HaeIII	GGCC	1 cut(s)	225
HapII	CCGG	2 cut(s)	26, 293
HgaI	GACGC	1 cut(s)	266
HhaI	GCGC	1 cut(s)	324
Hin1II	CATG	2 cut(s)	110, 248
Hin6I	GCGC	1 cut(s)	322
HinP1I	GCGC	1 cut(s)	322
HinfI	GANTC	2 cut(s)	116, 194
HpaII	CCGG	2 cut(s)	26, 293
HphI	GGTGA	1 cut(s)	50
Hpy188I	TCNGA	2 cut(s)	253, 301
Hpy188III	TCNNGA	2 cut(s)	73, 175
HpyAV	CCTTC	1 cut(s)	172
HpyCH4IV	ACGT	1 cut(s)	306
HpyCH4V	TGCA	1 cut(s)	106
HpyF10VI	GCNNNNNNNGC	1 cut(s)	67
HpyF3I	CTNAG	1 cut(s)	118
HpySE526I	ACGT	1 cut(s)	306
Hsp92II	CATG	2 cut(s)	110, 248
HspAI	GCGC	1 cut(s)	322
LpnPI	CCDG	9 cut(s)	39, 139, 166, 220, 247, 293, 302, 306, 350
MaeI	CTAG	2 cut(s)	146, 355
MaeII	ACGT	1 cut(s)	306
MboII	GAAGA	3 cut(s)	16, 163, 266
MlyI	GAGTC	2 cut(s)	110, 203
MnlI	CCTC	3 cut(s)	218, 236, 259
Mph1103I	ATGCAT	1 cut(s)	108
MseI	TTAA	1 cut(s)	140
MslI	CAYNNNNRTG	2 cut(s)	111, 173
MspI	CCGG	2 cut(s)	26, 293
MspR9I	CCNGG	1 cut(s)	235
MvaI	CCWGG	1 cut(s)	235
MvnI	CGCG	1 cut(s)	260
MwoI	GCNNNNNNNGC	1 cut(s)	67
NdeI	CATATG	1 cut(s)	185
NlaIII	CATG	2 cut(s)	110, 248
NlaIV	GGNNCC	2 cut(s)	287, 335
NmeAIII	GCCGAG	1 cut(s)	343
NsiI	ATGCAT	1 cut(s)	108
PkrI	GCNGC	1 cut(s)	277
PleI	GAGTC	2 cut(s)	110, 202
PpsI	GAGTC	2 cut(s)	110, 202
Psp6I	CCWGG	1 cut(s)	233
PspGI	CCWGG	1 cut(s)	233
PspN4I	GGNNCC	2 cut(s)	287, 335
PspPI	GGNCC	1 cut(s)	286
RsaI	GTAC	1 cut(s)	305
RsaNI	GTAC	1 cut(s)	304
RseI	CAYNNNNRTG	2 cut(s)	111, 173
SaqAI	TTAA	1 cut(s)	140
SatI	GCNGC	1 cut(s)	276
Sau96I	GGNCC	1 cut(s)	286
SchI	GAGTC	2 cut(s)	110, 203
ScrFI	CCNGG	1 cut(s)	235
SetI	ASST	5 cut(s)	11, 35, 147, 210, 309
SinI	GGWCC	1 cut(s)	286
SmiMI	CAYNNNNRTG	2 cut(s)	111, 173
SmlI	CTYRAG	1 cut(s)	71
SmoI	CTYRAG	1 cut(s)	71
SsiI	CCGC	3 cut(s)	199, 260, 276
SspMI	CTAG	2 cut(s)	146, 355
StyD4I	CCNGG	1 cut(s)	233
TaiI	ACGT	1 cut(s)	309
TaqI	TCGA	1 cut(s)	204
TaqII	GACCGA	1 cut(s)	285
TauI	GCSGC	1 cut(s)	278
Tru1I	TTAA	1 cut(s)	140
Tru9I	TTAA	1 cut(s)	140
TscAI	CASTG	1 cut(s)	287
TspDTI	ATGAA	1 cut(s)	17
TspGWI	ACGGA	2 cut(s)	233, 340
TspRI	CASTG	1 cut(s)	287
VpaK11BI	GGWCC	1 cut(s)	286
XspI	CTAG	2 cut(s)	146, 355
Zsp2I	ATGCAT	1 cut(s)	108

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