Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0002620

Physical Location & Seq

Genomic Coordinates Reverse (-)

8720052 .. 8726978

Gene Structure 6927 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG046300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 345 bp

ATGCCGACGATGGCCACAGAAGGGTTGAAAGTGGAAGTTGAGAAGTGTCTAACACAGGGTGAAAAGATTGCCAATGAGAAGATGGAGTTTGAATCCGCAGTTTATGCAAAGTTTCTTGGGGTCTTGAATTCAAAGAAGGCTAAACTAAGAGAGCTTCGGGACAAGCTCTCAAAACAAGAAGCGGCTGGGAAACTGCCACAAGAGGAAGAGAGCACAGACAAAACTGAAACTTATGTCAGTGATGATGAGAATAGTGATGTAGAAACCTTGAAAGATCCTCCAGCTACCTCCAAGGATATTCCATCTAGTAGGTCTCAAGGTCGAAAGAGGGCAATGGAGAAATAG

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

114

Amino Acids

12.75

Weight (kDa)

5.38

Isoelectric Point (pI)

53.33

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
XRCC4_CC	PF21924	8 - 52	3.8e-06	XRCC4 coiled-coil

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

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Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	96, 182
AclWI	GGATC	1 cut(s)	269
AcoI	YGGCCR	1 cut(s)	12
AcsI	RAATTY	1 cut(s)	127
AdeI	CACNNNGTG	1 cut(s)	59
AfiI	CCNNNNNNNGG	1 cut(s)	21
AgsI	TTSAA	5 cut(s)	28, 92, 127, 132, 271
AluBI	AGCT	3 cut(s)	154, 166, 284
AluI	AGCT	3 cut(s)	154, 166, 284
Alw21I	GWGCWC	1 cut(s)	215
Alw26I	GTCTC	1 cut(s)	318
AlwI	GGATC	1 cut(s)	269
AoxI	GGCC	1 cut(s)	12
ApoI	RAATTY	1 cut(s)	127
AsuHPI	GGTGA	1 cut(s)	71
BalI	TGGCCA	1 cut(s)	14
Bbv12I	GWGCWC	1 cut(s)	215
BccI	CCATC	3 cut(s)	4, 76, 310
BcoDI	GTCTC	1 cut(s)	318
BfaI	CTAG	1 cut(s)	306
BisI	GCNGC	1 cut(s)	183
BlsI	GCNGC	1 cut(s)	184
BpmI	CTGGAG	1 cut(s)	264
BpuEI	CTTGAG	1 cut(s)	300
BsaI	GGTCTC	1 cut(s)	318
BsaJI	CCNNGG	1 cut(s)	291
Bsc4I	CCNNNNNNNGG	1 cut(s)	21
Bse3DI	GCAATG	1 cut(s)	339
BseDI	CCNNGG	1 cut(s)	291
BseLI	CCNNNNNNNGG	1 cut(s)	21
BseMI	GCAATG	1 cut(s)	339
BseYI	CCCAGC	1 cut(s)	185
BshFI	GGCC	1 cut(s)	14
BsiHKAI	GWGCWC	1 cut(s)	215
BslFI	GGGAC	1 cut(s)	173
BslI	CCNNNNNNNGG	1 cut(s)	21
BsmAI	GTCTC	1 cut(s)	318
BsmFI	GGGAC	1 cut(s)	173
BsnI	GGCC	1 cut(s)	14
Bso31I	GGTCTC	1 cut(s)	318
Bsp1286I	GDGCHC	1 cut(s)	215
Bsp143I	GATC	1 cut(s)	274
BspACI	CCGC	2 cut(s)	96, 182
BspANI	GGCC	1 cut(s)	14
BspPI	GGATC	1 cut(s)	269
BspTNI	GGTCTC	1 cut(s)	318
BsrDI	GCAATG	1 cut(s)	339
BssECI	CCNNGG	1 cut(s)	291
BssMI	GATC	1 cut(s)	274
BssT1I	CCWWGG	1 cut(s)	291
Bst6I	CTCTTC	1 cut(s)	201
BstAPI	GCANNNNNTGC	1 cut(s)	104
BstDEI	CTNAG	1 cut(s)	146
BstKTI	GATC	1 cut(s)	277
BstMAI	GTCTC	1 cut(s)	318
BstMBI	GATC	1 cut(s)	274
BstMWI	GCNNNNNNNGC	1 cut(s)	104
BstX2I	RGATCY	1 cut(s)	274
BstYI	RGATCY	1 cut(s)	274
BsuRI	GGCC	1 cut(s)	14
BtsIMutI	CAGTG	1 cut(s)	244
CviJI	RGCY	6 cut(s)	14, 140, 154, 166, 185, 284
CviKI_1	RGCY	6 cut(s)	14, 140, 154, 166, 185, 284
DdeI	CTNAG	1 cut(s)	146
DpnI	GATC	1 cut(s)	276
DpnII	GATC	1 cut(s)	274
DraIII	CACNNNGTG	1 cut(s)	59
EaeI	YGGCCR	1 cut(s)	12
Eam1104I	CTCTTC	1 cut(s)	201
EarI	CTCTTC	1 cut(s)	201
Eco130I	CCWWGG	1 cut(s)	291
Eco31I	GGTCTC	1 cut(s)	318
EcoRI	GAATTC	1 cut(s)	127
EcoT14I	CCWWGG	1 cut(s)	291
ErhI	CCWWGG	1 cut(s)	291
FaiI	YATR	2 cut(s)	105, 234
FaqI	GGGAC	1 cut(s)	173
Fnu4HI	GCNGC	1 cut(s)	183
Fsp4HI	GCNGC	1 cut(s)	183
FspBI	CTAG	1 cut(s)	306
GluI	GCNGC	1 cut(s)	183
GsaI	CCCAGC	1 cut(s)	189
GsuI	CTGGAG	1 cut(s)	264
HaeIII	GGCC	1 cut(s)	14
HinfI	GANTC	1 cut(s)	92
HphI	GGTGA	1 cut(s)	71
Hpy188III	TCNNGA	2 cut(s)	124, 158
Hpy99I	CGWCG	1 cut(s)	10
HpyAV	CCTTC	2 cut(s)	14, 130
HpyCH4V	TGCA	1 cut(s)	107
HpyF10VI	GCNNNNNNNGC	1 cut(s)	104
HpyF3I	CTNAG	1 cut(s)	146
Kzo9I	GATC	1 cut(s)	274
LpnPI	CCDG	3 cut(s)	41, 171, 294
MaeI	CTAG	1 cut(s)	306
MalI	GATC	1 cut(s)	276
MboI	GATC	1 cut(s)	274
MboII	GAAGA	2 cut(s)	91, 218
MflI	RGATCY	1 cut(s)	274
MhlI	GDGCHC	1 cut(s)	215
MlsI	TGGCCA	1 cut(s)	14
MluCI	AATT	1 cut(s)	127
MluNI	TGGCCA	1 cut(s)	14
MnlI	CCTC	4 cut(s)	196, 288, 298, 321
Mox20I	TGGCCA	1 cut(s)	14
MscI	TGGCCA	1 cut(s)	14
Msp20I	TGGCCA	1 cut(s)	14
MwoI	GCNNNNNNNGC	1 cut(s)	104
NdeII	GATC	1 cut(s)	274
PfeI	GAWTC	1 cut(s)	92
PkrI	GCNGC	1 cut(s)	184
PspFI	CCCAGC	1 cut(s)	185
PsuI	RGATCY	1 cut(s)	274
SatI	GCNGC	1 cut(s)	183
Sau3AI	GATC	1 cut(s)	274
SduI	GDGCHC	1 cut(s)	215
SetI	ASST	7 cut(s)	156, 168, 269, 286, 290, 314, 322
SmlI	CTYRAG	1 cut(s)	315
SmoI	CTYRAG	1 cut(s)	315
Sse9I	AATT	1 cut(s)	127
SsiI	CCGC	2 cut(s)	96, 182
SspMI	CTAG	1 cut(s)	306
StyI	CCWWGG	1 cut(s)	291
TaqI	TCGA	1 cut(s)	322
TasI	AATT	1 cut(s)	127
TauI	GCSGC	1 cut(s)	185
TfiI	GAWTC	1 cut(s)	92
TscAI	CASTG	1 cut(s)	244
TspRI	CASTG	1 cut(s)	244
XapI	RAATTY	1 cut(s)	127
XcmI	CCANNNNNNNNNTGG	1 cut(s)	79
XspI	CTAG	1 cut(s)	306

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