Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000160

Orthogroup ID

OG0002620

Physical Location & Seq

Genomic Coordinates Reverse (-)

270736 .. 272849

Gene Structure 2114 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_160G00433790.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 651 bp

ATGGAGGATGATGACTCAGCCCCTAGACACTCGTGCTTAAAGCTGGAACCTAGAGAATCCCAACCCATCTTCGTGAAGGGCACATGGTTTGAGTCCCGCTTCGACCTCTCCATCACGGACGACCTCAACGCCTGGGTCTGCCATGCCTCCAAAGACGCGGTTAGAGCCCGAGCCACCCAGTGGGACCAGCCGGTATCCGAGGACGAAGCTAGAATGGCGGTGGAAGTGTCAATAAGGAAACAACAGCTGCAGCTAGTGTTGGATTTTCTGATGGATGCAAATGTTGGGCTAAGTGAAGAAGTTGTGAGAAAAACTCAATCATTTGAAAGGTTGAAAGTGGAAGCTGAGAAGTGTCTAACACAGAGTGAAACGATTGCCAATAAGAAGATGGAGTTTGAATCCGCAGTTTATGCAAAGTTTCTTGGGGTCTTGAATTCAAAGAAGGCTAAACTAAGAGAGCTTCGGGACAAGCTCTCAAAACAAGAAGCGGCTGGGAAACTGCCACAAGAGGAAGAGAGCACAGACAAAACTGAAACTTATGTCAGTGATGATGAGAATAGTGATATAGAAACCTTGAAAGATCCTCCAACTACCTCCAAGGATATTCCATCTAGTAGGTCTCAAGGTCGAAAGAGGGCATTGGAGAAATAG

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

216

Amino Acids

24.6

Weight (kDa)

5.16

Isoelectric Point (pI)

55.81

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
XRCC4	PF06632	22 - 67	4.9e-11	XRCC4 N-terminal domain
XRCC4_CC	PF21924	106 - 154	8.4e-06	XRCC4 coiled-coil

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: 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)
AccB7I	CCANNNNNTGG	1 cut(s)	180
AccII	CGCG	1 cut(s)	158
AciI	CCGC	5 cut(s)	97, 158, 218, 402, 488
AclWI	GGATC	1 cut(s)	575
AcsI	RAATTY	1 cut(s)	433
AdeI	CACNNNGTG	2 cut(s)	180, 365
AfiI	CCNNNNNNNGG	1 cut(s)	180
AgsI	TTSAA	6 cut(s)	326, 334, 398, 433, 438, 577
AjnI	CCWGG	1 cut(s)	131
AluBI	AGCT	7 cut(s)	43, 209, 247, 253, 344, 460, 472
AluI	AGCT	7 cut(s)	43, 209, 247, 253, 344, 460, 472
Alw21I	GWGCWC	1 cut(s)	521
Alw26I	GTCTC	1 cut(s)	624
AlwI	GGATC	1 cut(s)	575
Ama87I	CYCGRG	1 cut(s)	168
ApeKI	GCWGC	2 cut(s)	247, 250
ApoI	RAATTY	1 cut(s)	433
AspS9I	GGNCC	1 cut(s)	184
AvaI	CYCGRG	1 cut(s)	168
AvaII	GGWCC	1 cut(s)	184
BaeGI	GKGCMC	1 cut(s)	83
BanII	GRGCYC	1 cut(s)	169
BauI	CACGAG	1 cut(s)	31
Bbv12I	GWGCWC	1 cut(s)	521
BbvI	GCAGC	2 cut(s)	234, 262
BccI	CCATC	5 cut(s)	74, 119, 265, 382, 616
BciT130I	CCWGG	1 cut(s)	133
BciVI	GTATCC	1 cut(s)	205
BcoDI	GTCTC	1 cut(s)	624
BfaI	CTAG	5 cut(s)	24, 51, 210, 254, 612
BfmI	CTRYAG	1 cut(s)	248
BfuI	GTATCC	1 cut(s)	205
BisI	GCNGC	3 cut(s)	248, 251, 489
BlsI	GCNGC	3 cut(s)	249, 252, 490
Bme1390I	CCNGG	1 cut(s)	133
Bme18I	GGWCC	1 cut(s)	184
BmeT110I	CYCGRG	1 cut(s)	168
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	1 cut(s)	265
BmuI	ACTGGG	1 cut(s)	172
BplI	GAGNNNNNCTC	2 cut(s)	298, 330
BpuEI	CTTGAG	1 cut(s)	606
BsaI	GGTCTC	1 cut(s)	624
BsaJI	CCNNGG	3 cut(s)	132, 198, 597
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	3 cut(s)	132, 198, 597
BseGI	GGATG	2 cut(s)	13, 280
BseLI	CCNNNNNNNGG	1 cut(s)	180
BseMII	CTCAG	2 cut(s)	30, 336
BseNI	ACTGG	1 cut(s)	178
BseSI	GKGCMC	1 cut(s)	83
BseXI	GCAGC	2 cut(s)	234, 262
BseYI	CCCAGC	1 cut(s)	491
Bsh1236I	CGCG	1 cut(s)	158
BsiHKAI	GWGCWC	1 cut(s)	521
BsiHKCI	CYCGRG	1 cut(s)	168
BsiSI	CCGG	1 cut(s)	191
BslFI	GGGAC	3 cut(s)	79, 197, 479
BslI	CCNNNNNNNGG	1 cut(s)	180
BsmAI	GTCTC	1 cut(s)	624
BsmFI	GGGAC	3 cut(s)	79, 197, 479
Bso31I	GGTCTC	1 cut(s)	624
BsoBI	CYCGRG	1 cut(s)	168
Bsp1286I	GDGCHC	3 cut(s)	83, 169, 521
Bsp143I	GATC	1 cut(s)	580
BspACI	CCGC	5 cut(s)	97, 158, 218, 402, 488
BspCNI	CTCAG	2 cut(s)	29, 337
BspFNI	CGCG	1 cut(s)	158
BspLI	GGNNCC	2 cut(s)	48, 185
BspMAI	CTGCAG	1 cut(s)	252
BspPI	GGATC	1 cut(s)	575
BspTNI	GGTCTC	1 cut(s)	624
BsrFI	RCCGGY	1 cut(s)	190
BsrI	ACTGG	1 cut(s)	178
BssAI	RCCGGY	1 cut(s)	190
BssECI	CCNNGG	3 cut(s)	132, 198, 597
BssMI	GATC	1 cut(s)	580
BssSI	CACGAG	1 cut(s)	31
BssT1I	CCWWGG	1 cut(s)	597
Bst2BI	CACGAG	1 cut(s)	31
Bst2UI	CCWGG	1 cut(s)	133
Bst6I	CTCTTC	1 cut(s)	507
BstAPI	GCANNNNNTGC	1 cut(s)	410
BstDEI	CTNAG	4 cut(s)	16, 290, 345, 452
BstF5I	GGATG	2 cut(s)	13, 280
BstFNI	CGCG	1 cut(s)	158
BstKTI	GATC	1 cut(s)	583
BstMAI	GTCTC	1 cut(s)	624
BstMBI	GATC	1 cut(s)	580
BstMWI	GCNNNNNNNGC	3 cut(s)	164, 215, 410
BstNI	CCWGG	1 cut(s)	133
BstSCI	CCNGG	1 cut(s)	131
BstSFI	CTRYAG	1 cut(s)	248
BstSLI	GKGCMC	1 cut(s)	83
BstUI	CGCG	1 cut(s)	158
BstV1I	GCAGC	2 cut(s)	234, 262
BstX2I	RGATCY	1 cut(s)	580
BstYI	RGATCY	1 cut(s)	580
BsuI	GTATCC	1 cut(s)	205
BtsCI	GGATG	2 cut(s)	13, 280
BtsIMutI	CAGTG	2 cut(s)	185, 550
Cfr10I	RCCGGY	1 cut(s)	190
Cfr13I	GGNCC	1 cut(s)	184
CseI	GACGC	1 cut(s)	164
CviAII	CATG	2 cut(s)	84, 143
DdeI	CTNAG	4 cut(s)	16, 290, 345, 452
DpnI	GATC	1 cut(s)	582
DpnII	GATC	1 cut(s)	580
DraIII	CACNNNGTG	2 cut(s)	180, 365
Eam1104I	CTCTTC	1 cut(s)	507
EarI	CTCTTC	1 cut(s)	507
Eco130I	CCWWGG	1 cut(s)	597
Eco24I	GRGCYC	1 cut(s)	169
Eco31I	GGTCTC	1 cut(s)	624
Eco47I	GGWCC	1 cut(s)	184
Eco88I	CYCGRG	1 cut(s)	168
EcoRI	GAATTC	1 cut(s)	433
EcoRII	CCWGG	1 cut(s)	131
EcoT14I	CCWWGG	1 cut(s)	597
EcoT38I	GRGCYC	1 cut(s)	169
ErhI	CCWWGG	1 cut(s)	597
FaeI	CATG	2 cut(s)	87, 146
FaiI	YATR	5 cut(s)	85, 144, 411, 540, 566
FaqI	GGGAC	3 cut(s)	79, 197, 479
FatI	CATG	2 cut(s)	83, 142
FauI	CCCGC	1 cut(s)	104
Fnu4HI	GCNGC	3 cut(s)	248, 251, 489
FokI	GGATG	2 cut(s)	20, 287
FriOI	GRGCYC	1 cut(s)	169
Fsp4HI	GCNGC	3 cut(s)	248, 251, 489
FspBI	CTAG	5 cut(s)	24, 51, 210, 254, 612
GluI	GCNGC	3 cut(s)	248, 251, 489
GsaI	CCCAGC	1 cut(s)	495
HapII	CCGG	1 cut(s)	191
HgaI	GACGC	1 cut(s)	164
Hin1II	CATG	2 cut(s)	87, 146
HinfI	GANTC	4 cut(s)	14, 56, 92, 398
HpaII	CCGG	1 cut(s)	191
Hpy188I	TCNGA	2 cut(s)	199, 270
Hpy188III	TCNNGA	3 cut(s)	73, 430, 464
HpyAV	CCTTC	2 cut(s)	70, 436
HpyCH4V	TGCA	3 cut(s)	250, 278, 413
HpyF10VI	GCNNNNNNNGC	3 cut(s)	164, 215, 410
HpyF3I	CTNAG	4 cut(s)	16, 290, 345, 452
Hsp92II	CATG	2 cut(s)	87, 146
Kzo9I	GATC	1 cut(s)	580
LpnPI	CCDG	7 cut(s)	29, 118, 145, 191, 200, 204, 477
Lsp1109I	GCAGC	2 cut(s)	234, 262
LweI	GCATC	1 cut(s)	265
MaeI	CTAG	5 cut(s)	24, 51, 210, 254, 612
MalI	GATC	1 cut(s)	582
MboI	GATC	1 cut(s)	580
MboII	GAAGA	4 cut(s)	61, 308, 397, 524
MflI	RGATCY	1 cut(s)	580
MhlI	GDGCHC	3 cut(s)	83, 169, 521
MluCI	AATT	1 cut(s)	433
MlyI	GAGTC	2 cut(s)	8, 101
MmeI	TCCRAC	2 cut(s)	240, 611
MnlI	CCTC	8 cut(s)	116, 134, 157, 193, 502, 594, 604, 627
MseI	TTAA	1 cut(s)	38
MslI	CAYNNNNRTG	1 cut(s)	71
MspA1I	CMGCKG	1 cut(s)	247
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	3 cut(s)	164, 215, 410
NdeII	GATC	1 cut(s)	580
NlaIII	CATG	2 cut(s)	87, 146
NlaIV	GGNNCC	2 cut(s)	48, 185
PfeI	GAWTC	2 cut(s)	56, 398
PflMI	CCANNNNNTGG	1 cut(s)	180
PkrI	GCNGC	3 cut(s)	249, 252, 490
PleI	GAGTC	2 cut(s)	8, 100
PpsI	GAGTC	2 cut(s)	8, 100
Psp6I	CCWGG	1 cut(s)	131
PspFI	CCCAGC	1 cut(s)	491
PspGI	CCWGG	1 cut(s)	131
PspN4I	GGNNCC	2 cut(s)	48, 185
PspPI	GGNCC	1 cut(s)	184
PstI	CTGCAG	1 cut(s)	252
PsuI	RGATCY	1 cut(s)	580
PvuII	CAGCTG	1 cut(s)	247
RseI	CAYNNNNRTG	1 cut(s)	71
SaqAI	TTAA	1 cut(s)	38
SatI	GCNGC	3 cut(s)	248, 251, 489
Sau3AI	GATC	1 cut(s)	580
Sau96I	GGNCC	1 cut(s)	184
SchI	GAGTC	2 cut(s)	8, 101
ScrFI	CCNGG	1 cut(s)	133
SduI	GDGCHC	3 cut(s)	83, 169, 521
SfaNI	GCATC	1 cut(s)	265
SfcI	CTRYAG	1 cut(s)	248
SinI	GGWCC	1 cut(s)	184
SmiMI	CAYNNNNRTG	1 cut(s)	71
SmlI	CTYRAG	1 cut(s)	621
SmoI	CTYRAG	1 cut(s)	621
Sse9I	AATT	1 cut(s)	433
SsiI	CCGC	5 cut(s)	97, 158, 218, 402, 488
SspMI	CTAG	5 cut(s)	24, 51, 210, 254, 612
StyD4I	CCNGG	1 cut(s)	131
StyI	CCWWGG	1 cut(s)	597
TaqI	TCGA	2 cut(s)	102, 628
TasI	AATT	1 cut(s)	433
TauI	GCSGC	1 cut(s)	491
TfiI	GAWTC	2 cut(s)	56, 398
Tru1I	TTAA	1 cut(s)	38
Tru9I	TTAA	1 cut(s)	38
TscAI	CASTG	2 cut(s)	185, 550
TseI	GCWGC	2 cut(s)	247, 250
TspGWI	ACGGA	1 cut(s)	131
TspRI	CASTG	2 cut(s)	185, 550
Van91I	CCANNNNNTGG	1 cut(s)	180
VpaK11BI	GGWCC	1 cut(s)	184
XapI	RAATTY	1 cut(s)	433
XcmI	CCANNNNNNNNNTGG	1 cut(s)	385
XspI	CTAG	5 cut(s)	24, 51, 210, 254, 612

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