Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0002620

Physical Location & Seq

Genomic Coordinates Forward (+)

58048715 .. 58054220

Gene Structure 5506 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00325990.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 780 bp

ATGGAGGATGATGGCTCAGTCCCCAGACACTCGTGCTTAAAGCTGGAGCCGAGAGAGTCCCAACCCATCTTCGTCAAGGGCACATGGTTCGAGTCCCGCTTCGACCTCTCCATCACCGACGGCCTCAACGCCTGGGTCTGCCGTGCCTCCGAAGACGCGGTTAGAGACCGAGCCGCCCAGTGGGACCAGCCGGTATCCGAGTACGTCTCATTAGCCGAGCGCTATTTAGGGTTTCAGCACTCTGATTCCGTCTACGGGTTCACTGATGCTGGCGATGGCCACAAAAGGTTGTCGTGGACTTTTGAGAAGGAAGGGACGAAGCTAGAATGGCGGTGGAAGTGTCAACCATCGCCTAACAGTAAGGAAACGACAGCTGCAGTGTTGGATTTTCTGATGGATGCAAATGTTGGGCTAAGTGAAGAAGTTGTGAGAAAAACTCAATCATTTGAGAGGTTGAAAGTGGAAGCTCAGAAGTGTCTAACACAGAGTGAAAAGATTGCCAATGAGAAGATGGAGTTTGAATCCGCAGTTTATGCAAAAGGTTTTCTTGGTGTCTTGAATTCAAAGAAGGCTAAACTAAGAGAGCTTCGGGACAAGCTCTCAAAACAAGAAGCGGCTGGGAAACTGCCACAAGAACAGGAAGAGAGCACAGACAAAACTGAAACTTATGTCAGTGATGATGAGAATAGTGAGGTAGAATCCTTGAAAGATCCTTCAGCTACCTCCAAGGATATTCCATCTAGTAGGTCTCGAGGTCGAAAGAGGGCATTGGAGAGATAG

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

259

Amino Acids

29.44

Weight (kDa)

5.41

Isoelectric Point (pI)

47.45

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
XLF	PF09302	17 - 115	5.6e-06	XLF N-terminal domain
XRCC4	PF06632	22 - 117	4.7e-28	XRCC4 N-terminal domain

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)
AccI	GTMKAC	1 cut(s)	252
AccII	CGCG	1 cut(s)	158
AciI	CCGC	6 cut(s)	97, 158, 174, 331, 525, 614
AclWI	GGATC	1 cut(s)	704
AcoI	YGGCCR	1 cut(s)	277
AcsI	RAATTY	1 cut(s)	559
AcuI	CTGAAG	1 cut(s)	699
AdeI	CACNNNGTG	1 cut(s)	488
AfaI	GTAC	1 cut(s)	203
AfeI	AGCGCT	1 cut(s)	221
AfiI	CCNNNNNNNGG	2 cut(s)	180, 255
AgsI	TTSAA	5 cut(s)	457, 521, 559, 564, 706
AjnI	CCWGG	1 cut(s)	131
AluBI	AGCT	7 cut(s)	43, 322, 374, 467, 586, 598, 719
AluI	AGCT	7 cut(s)	43, 322, 374, 467, 586, 598, 719
Alw21I	GWGCWC	1 cut(s)	650
Alw26I	GTCTC	3 cut(s)	159, 211, 753
AlwI	GGATC	1 cut(s)	704
Ama87I	CYCGRG	1 cut(s)	750
Aor51HI	AGCGCT	1 cut(s)	221
AoxI	GGCC	2 cut(s)	121, 277
ApeKI	GCWGC	1 cut(s)	374
ApoI	RAATTY	1 cut(s)	559
AspLEI	GCGC	1 cut(s)	222
AspS9I	GGNCC	1 cut(s)	184
AsuHPI	GGTGA	1 cut(s)	106
AvaI	CYCGRG	1 cut(s)	750
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)	650
BbvI	GCAGC	1 cut(s)	361
BccI	CCATC	8 cut(s)	5, 74, 119, 269, 355, 388, 505, 745
BceAI	ACGGC	2 cut(s)	126, 136
BcgI	CGANNNNNNTGC	2 cut(s)	70, 104
BciT130I	CCWGG	1 cut(s)	133
BciVI	GTATCC	1 cut(s)	205
BcoDI	GTCTC	3 cut(s)	159, 211, 753
BfaI	CTAG	2 cut(s)	323, 741
BfmI	CTRYAG	1 cut(s)	375
BfoI	RGCGCY	1 cut(s)	223
BfuI	GTATCC	1 cut(s)	205
BisI	GCNGC	3 cut(s)	174, 375, 615
BlsI	GCNGC	3 cut(s)	175, 376, 616
Bme1390I	CCNGG	1 cut(s)	133
Bme18I	GGWCC	1 cut(s)	184
BmeT110I	CYCGRG	1 cut(s)	750
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	4 cut(s)	191, 223, 421, 453
BpmI	CTGGAG	1 cut(s)	65
BsaI	GGTCTC	2 cut(s)	159, 753
BsaJI	CCNNGG	2 cut(s)	132, 726
Bsc4I	CCNNNNNNNGG	2 cut(s)	180, 255
Bse118I	RCCGGY	1 cut(s)	190
Bse1I	ACTGG	1 cut(s)	178
BseBI	CCWGG	1 cut(s)	133
BseDI	CCNNGG	2 cut(s)	132, 726
BseGI	GGATG	2 cut(s)	13, 403
BseLI	CCNNNNNNNGG	2 cut(s)	180, 255
BseMII	CTCAG	2 cut(s)	30, 482
BseNI	ACTGG	1 cut(s)	178
BseSI	GKGCMC	1 cut(s)	83
BseXI	GCAGC	1 cut(s)	361
BseYI	CCCAGC	1 cut(s)	617
Bsh1236I	CGCG	1 cut(s)	158
BshFI	GGCC	2 cut(s)	123, 279
BsiHKAI	GWGCWC	1 cut(s)	650
BsiHKCI	CYCGRG	1 cut(s)	750
BsiSI	CCGG	1 cut(s)	191
BslFI	GGGAC	6 cut(s)	5, 43, 79, 197, 328, 605
BslI	CCNNNNNNNGG	2 cut(s)	180, 255
BsmAI	GTCTC	3 cut(s)	159, 211, 753
BsmBI	CGTCTC	1 cut(s)	211
BsmFI	GGGAC	6 cut(s)	5, 43, 79, 197, 328, 605
BsnI	GGCC	2 cut(s)	123, 279
Bso31I	GGTCTC	2 cut(s)	159, 753
BsoBI	CYCGRG	1 cut(s)	750
Bsp1286I	GDGCHC	2 cut(s)	83, 650
Bsp143I	GATC	1 cut(s)	709
BspACI	CCGC	6 cut(s)	97, 158, 174, 331, 525, 614
BspANI	GGCC	2 cut(s)	123, 279
BspCNI	CTCAG	2 cut(s)	29, 481
BspFNI	CGCG	1 cut(s)	158
BspLI	GGNNCC	2 cut(s)	48, 185
BspMAI	CTGCAG	1 cut(s)	379
BspPI	GGATC	1 cut(s)	704
BspTNI	GGTCTC	2 cut(s)	159, 753
BsrFI	RCCGGY	1 cut(s)	190
BsrI	ACTGG	1 cut(s)	178
BssAI	RCCGGY	1 cut(s)	190
BssECI	CCNNGG	2 cut(s)	132, 726
BssMI	GATC	1 cut(s)	709
BssSI	CACGAG	1 cut(s)	31
BssT1I	CCWWGG	1 cut(s)	726
Bst2BI	CACGAG	1 cut(s)	31
Bst2UI	CCWGG	1 cut(s)	133
Bst4CI	ACNGT	1 cut(s)	359
Bst6I	CTCTTC	1 cut(s)	636
BstAPI	GCANNNNNTGC	1 cut(s)	533
BstC8I	GCNNGC	1 cut(s)	271
BstDEI	CTNAG	4 cut(s)	16, 413, 468, 578
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)	712
BstMAI	GTCTC	3 cut(s)	159, 211, 753
BstMBI	GATC	1 cut(s)	709
BstMWI	GCNNNNNNNGC	2 cut(s)	328, 533
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)	709
BstYI	RGATCY	1 cut(s)	709
BsuI	GTATCC	1 cut(s)	205
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, 679
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	1 cut(s)	84
CviQI	GTAC	1 cut(s)	202
DdeI	CTNAG	4 cut(s)	16, 413, 468, 578
DpnI	GATC	1 cut(s)	711
DpnII	GATC	1 cut(s)	709
DraIII	CACNNNGTG	1 cut(s)	488
EaeI	YGGCCR	1 cut(s)	277
Eam1104I	CTCTTC	1 cut(s)	636
EarI	CTCTTC	1 cut(s)	636
Eco130I	CCWWGG	1 cut(s)	726
Eco31I	GGTCTC	2 cut(s)	159, 753
Eco47I	GGWCC	1 cut(s)	184
Eco47III	AGCGCT	1 cut(s)	221
Eco57I	CTGAAG	1 cut(s)	699
Eco88I	CYCGRG	1 cut(s)	750
EcoRI	GAATTC	1 cut(s)	559
EcoRII	CCWGG	1 cut(s)	131
EcoT14I	CCWWGG	1 cut(s)	726
ErhI	CCWWGG	1 cut(s)	726
Esp3I	CGTCTC	1 cut(s)	211
FaeI	CATG	1 cut(s)	87
FaiI	YATR	3 cut(s)	85, 534, 669
FalI	AAGNNNNNCTT	2 cut(s)	531, 563
FaqI	GGGAC	6 cut(s)	5, 43, 79, 197, 328, 605
FatI	CATG	1 cut(s)	83
FauI	CCCGC	1 cut(s)	104
FblI	GTMKAC	1 cut(s)	252
Fnu4HI	GCNGC	3 cut(s)	174, 375, 615
FokI	GGATG	2 cut(s)	20, 410
Fsp4HI	GCNGC	3 cut(s)	174, 375, 615
FspBI	CTAG	2 cut(s)	323, 741
GlaI	GCGC	1 cut(s)	221
GluI	GCNGC	3 cut(s)	174, 375, 615
GsaI	CCCAGC	1 cut(s)	621
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	1 cut(s)	87
Hin6I	GCGC	1 cut(s)	220
HinP1I	GCGC	1 cut(s)	220
HincII	GTYRAC	1 cut(s)	344
HindII	GTYRAC	1 cut(s)	344
HinfI	GANTC	5 cut(s)	56, 92, 245, 521, 698
HpaII	CCGG	1 cut(s)	191
HphI	GGTGA	1 cut(s)	106
Hpy166II	GTNNAC	4 cut(s)	253, 261, 297, 344
Hpy188I	TCNGA	5 cut(s)	151, 199, 244, 393, 471
Hpy188III	TCNNGA	3 cut(s)	556, 590, 750
Hpy8I	GTNNAC	4 cut(s)	253, 261, 297, 344
Hpy99I	CGWCG	1 cut(s)	122
HpyAV	CCTTC	4 cut(s)	301, 305, 562, 723
HpyCH4III	ACNGT	1 cut(s)	359
HpyCH4IV	ACGT	1 cut(s)	204
HpyCH4V	TGCA	3 cut(s)	377, 401, 536
HpyF10VI	GCNNNNNNNGC	2 cut(s)	328, 533
HpyF3I	CTNAG	4 cut(s)	16, 413, 468, 578
HpySE526I	ACGT	1 cut(s)	204
Hsp92II	CATG	1 cut(s)	87
HspAI	GCGC	1 cut(s)	220
Kzo9I	GATC	1 cut(s)	709
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, 741
MaeII	ACGT	1 cut(s)	204
MalI	GATC	1 cut(s)	711
MboI	GATC	1 cut(s)	709
MboII	GAAGA	5 cut(s)	61, 164, 431, 520, 653
MflI	RGATCY	1 cut(s)	709
MhlI	GDGCHC	2 cut(s)	83, 650
MlsI	TGGCCA	1 cut(s)	279
MluCI	AATT	1 cut(s)	559
MluNI	TGGCCA	1 cut(s)	279
MlyI	GAGTC	2 cut(s)	65, 101
MmeI	TCCRAC	1 cut(s)	363
MnlI	CCTC	8 cut(s)	116, 134, 157, 444, 685, 733, 746, 756
Mox20I	TGGCCA	1 cut(s)	279
MscI	TGGCCA	1 cut(s)	279
MseI	TTAA	1 cut(s)	38
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	2 cut(s)	328, 533
NdeII	GATC	1 cut(s)	709
NlaIII	CATG	1 cut(s)	87
NlaIV	GGNNCC	2 cut(s)	48, 185
NmeAIII	GCCGAG	2 cut(s)	75, 241
PaeR7I	CTCGAG	1 cut(s)	750
PfeI	GAWTC	3 cut(s)	245, 521, 698
PkrI	GCNGC	3 cut(s)	175, 376, 616
PleI	GAGTC	2 cut(s)	64, 100
PpsI	GAGTC	2 cut(s)	64, 100
Psp6I	CCWGG	1 cut(s)	131
PspFI	CCCAGC	1 cut(s)	617
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)	709
PvuII	CAGCTG	1 cut(s)	374
RsaI	GTAC	1 cut(s)	203
RsaNI	GTAC	1 cut(s)	202
SaqAI	TTAA	1 cut(s)	38
SatI	GCNGC	3 cut(s)	174, 375, 615
Sau3AI	GATC	1 cut(s)	709
Sau96I	GGNCC	1 cut(s)	184
SchI	GAGTC	2 cut(s)	65, 101
ScrFI	CCNGG	1 cut(s)	133
SduI	GDGCHC	2 cut(s)	83, 650
SfaNI	GCATC	2 cut(s)	256, 388
SfcI	CTRYAG	1 cut(s)	375
Sfr274I	CTCGAG	1 cut(s)	750
SinI	GGWCC	1 cut(s)	184
SlaI	CTCGAG	1 cut(s)	750
SmlI	CTYRAG	1 cut(s)	750
SmoI	CTYRAG	1 cut(s)	750
Sse9I	AATT	1 cut(s)	559
SsiI	CCGC	6 cut(s)	97, 158, 174, 331, 525, 614
SspMI	CTAG	2 cut(s)	323, 741
StyD4I	CCNGG	1 cut(s)	131
StyI	CCWWGG	1 cut(s)	726
TaaI	ACNGT	1 cut(s)	359
TaiI	ACGT	1 cut(s)	207
TaqI	TCGA	4 cut(s)	90, 102, 751, 757
TaqII	GACCGA	1 cut(s)	183
TasI	AATT	1 cut(s)	559
TauI	GCSGC	2 cut(s)	176, 617
TfiI	GAWTC	3 cut(s)	245, 521, 698
Tru1I	TTAA	1 cut(s)	38
Tru9I	TTAA	1 cut(s)	38
TscAI	CASTG	4 cut(s)	185, 268, 384, 679
TseI	GCWGC	1 cut(s)	374
TspGWI	ACGGA	1 cut(s)	238
TspRI	CASTG	4 cut(s)	185, 268, 384, 679
VpaK11BI	GGWCC	1 cut(s)	184
XapI	RAATTY	1 cut(s)	559
XcmI	CCANNNNNNNNNTGG	1 cut(s)	508
XhoI	CTCGAG	1 cut(s)	750
XmiI	GTMKAC	1 cut(s)	252
XspI	CTAG	2 cut(s)	323, 741

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