Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0002620

Physical Location & Seq

Genomic Coordinates Reverse (-)

7524066 .. 7525691

Gene Structure 1626 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG043800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 540 bp

ATGAAGGATGATGGCTCAGCCCCCAGACACTCGTGCTTAAAGCTGGAACCCAGAGAATCCCAACCCATCTTCGTCAAGGGCACATGGTTCGAGTCCCGCTTCAACCTCTCCATCACAGACGACCTCAACGCCTGGGTCTGCCATGCCTCCGAAGACTCGGTTAGAGACCAAGCCGCCCAGTGGGATCAGCCAGTATCTGAGTACGTCTCATTAGCCGAGCGCTATTTAGGGTTCCAACACTCTGCTTCCGTCTACGGATTCATTGATGCCGGCTATGGCCATAGAAGGACTGAGTTTGTTAACCTCAGATATGCTGATTTATATTGCCTAGGAGCTGAATGTTTCAACAAAAGCTTAAATATAGACTCCCAATTTTCCTGGGAAGAGGTGCCAAGATCAATCATAAAGGAGATTTTTTTGTTAGTAGTTGACGACATCTCTTCATGTAACATGATACTTCGGAGAATATCTCTCACCAGTCATGGGGTTAGTGATAAGAATCAATATACGAAGTTGGCTCCTGGTGTGGCAAACTCTTAA

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

179

Amino Acids

20.34

Weight (kDa)

5.33

Isoelectric Point (pI)

48.76

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
XRCC4	PF06632	22 - 99	9.3e-20	XRCC4 N-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AccB1I	GGYRCC	1 cut(s)	388
AccI	GTMKAC	1 cut(s)	252
AciI	CCGC	2 cut(s)	97, 174
AclWI	GGATC	1 cut(s)	192
AcoI	YGGCCR	1 cut(s)	277
AfaI	GTAC	1 cut(s)	203
AfeI	AGCGCT	1 cut(s)	221
AfiI	CCNNNNNNNGG	2 cut(s)	180, 483
AgsI	TTSAA	2 cut(s)	103, 346
AjnI	CCWGG	3 cut(s)	131, 377, 520
AluBI	AGCT	3 cut(s)	43, 335, 354
AluI	AGCT	3 cut(s)	43, 335, 354
Alw26I	GTCTC	2 cut(s)	159, 211
AlwI	GGATC	1 cut(s)	192
AlwNI	CAGNNNCTG	1 cut(s)	197
Aor51HI	AGCGCT	1 cut(s)	221
AoxI	GGCC	1 cut(s)	277
AspA2I	CCTAGG	1 cut(s)	328
AspLEI	GCGC	1 cut(s)	222
AsuHPI	GGTGA	1 cut(s)	466
AvrII	CCTAGG	1 cut(s)	328
BaeGI	GKGCMC	1 cut(s)	83
BalI	TGGCCA	1 cut(s)	279
BanI	GGYRCC	1 cut(s)	388
BauI	CACGAG	1 cut(s)	31
BbsI	GAAGAC	1 cut(s)	159
BccI	CCATC	3 cut(s)	5, 74, 119
BcgI	CGANNNNNNTGC	2 cut(s)	70, 104
BciT130I	CCWGG	3 cut(s)	133, 379, 522
BcoDI	GTCTC	2 cut(s)	159, 211
BfaI	CTAG	1 cut(s)	329
BfoI	RGCGCY	1 cut(s)	223
BisI	GCNGC	1 cut(s)	174
BlnI	CCTAGG	1 cut(s)	328
BlpI	GCTNAGC	1 cut(s)	16
BlsI	GCNGC	1 cut(s)	175
Bme1390I	CCNGG	3 cut(s)	133, 379, 522
BmiI	GGNNCC	4 cut(s)	48, 233, 390, 519
BmrFI	CCNGG	3 cut(s)	133, 379, 522
BmrI	ACTGGG	1 cut(s)	172
BmsI	GCATC	1 cut(s)	256
BmuI	ACTGGG	1 cut(s)	172
BpiI	GAAGAC	1 cut(s)	159
BplI	GAGNNNNNCTC	4 cut(s)	191, 223, 454, 486
Bpu1102I	GCTNAGC	1 cut(s)	16
BsaBI	GATNNNNATC	1 cut(s)	498
BsaI	GGTCTC	1 cut(s)	159
BsaJI	CCNNGG	3 cut(s)	132, 328, 378
Bsc4I	CCNNNNNNNGG	2 cut(s)	180, 483
Bse118I	RCCGGY	1 cut(s)	269
Bse1I	ACTGG	3 cut(s)	178, 191, 477
Bse8I	GATNNNNATC	1 cut(s)	498
BseBI	CCWGG	3 cut(s)	133, 379, 522
BseDI	CCNNGG	3 cut(s)	132, 328, 378
BseGI	GGATG	1 cut(s)	13
BseJI	GATNNNNATC	1 cut(s)	498
BseLI	CCNNNNNNNGG	2 cut(s)	180, 483
BseMII	CTCAG	4 cut(s)	30, 189, 282, 319
BseNI	ACTGG	3 cut(s)	178, 191, 477
BseSI	GKGCMC	1 cut(s)	83
BshFI	GGCC	1 cut(s)	279
BshNI	GGYRCC	1 cut(s)	388
BsiSI	CCGG	1 cut(s)	270
BslFI	GGGAC	1 cut(s)	79
BslI	CCNNNNNNNGG	2 cut(s)	180, 483
BsmAI	GTCTC	2 cut(s)	159, 211
BsmBI	CGTCTC	1 cut(s)	211
BsmFI	GGGAC	1 cut(s)	79
BsnI	GGCC	1 cut(s)	279
Bso31I	GGTCTC	1 cut(s)	159
Bsp1286I	GDGCHC	1 cut(s)	83
Bsp143I	GATC	2 cut(s)	184, 395
Bsp1720I	GCTNAGC	1 cut(s)	16
BspACI	CCGC	2 cut(s)	97, 174
BspANI	GGCC	1 cut(s)	279
BspCNI	CTCAG	4 cut(s)	29, 190, 283, 318
BspLI	GGNNCC	4 cut(s)	48, 233, 390, 519
BspPI	GGATC	1 cut(s)	192
BspT107I	GGYRCC	1 cut(s)	388
BspTNI	GGTCTC	1 cut(s)	159
BsrFI	RCCGGY	1 cut(s)	269
BsrI	ACTGG	3 cut(s)	178, 191, 477
BssAI	RCCGGY	1 cut(s)	269
BssECI	CCNNGG	3 cut(s)	132, 328, 378
BssMI	GATC	2 cut(s)	184, 395
BssSI	CACGAG	1 cut(s)	31
BssT1I	CCWWGG	1 cut(s)	328
Bst2BI	CACGAG	1 cut(s)	31
Bst2UI	CCWGG	3 cut(s)	133, 379, 522
Bst6I	CTCTTC	2 cut(s)	378, 445
BstC8I	GCNNGC	1 cut(s)	271
BstDEI	CTNAG	4 cut(s)	16, 198, 291, 305
BstF5I	GGATG	1 cut(s)	13
BstH2I	RGCGCY	1 cut(s)	223
BstHHI	GCGC	1 cut(s)	222
BstKTI	GATC	2 cut(s)	187, 398
BstMAI	GTCTC	2 cut(s)	159, 211
BstMBI	GATC	2 cut(s)	184, 395
BstNI	CCWGG	3 cut(s)	133, 379, 522
BstSCI	CCNGG	3 cut(s)	131, 377, 520
BstSLI	GKGCMC	1 cut(s)	83
BstV2I	GAAGAC	1 cut(s)	159
BsuRI	GGCC	1 cut(s)	279
BtsCI	GGATG	1 cut(s)	13
BtsIMutI	CAGTG	1 cut(s)	185
Cac8I	GCNNGC	1 cut(s)	271
CaiI	CAGNNNCTG	1 cut(s)	197
CfoI	GCGC	1 cut(s)	222
Cfr10I	RCCGGY	1 cut(s)	269
Csp6I	GTAC	1 cut(s)	202
CviAII	CATG	5 cut(s)	84, 143, 444, 451, 482
CviQI	GTAC	1 cut(s)	202
DdeI	CTNAG	4 cut(s)	16, 198, 291, 305
DpnI	GATC	2 cut(s)	186, 397
DpnII	GATC	2 cut(s)	184, 395
EaeI	YGGCCR	1 cut(s)	277
Eam1104I	CTCTTC	2 cut(s)	378, 445
EarI	CTCTTC	2 cut(s)	378, 445
Eco130I	CCWWGG	1 cut(s)	328
Eco31I	GGTCTC	1 cut(s)	159
Eco47III	AGCGCT	1 cut(s)	221
EcoRII	CCWGG	3 cut(s)	131, 377, 520
EcoT14I	CCWWGG	1 cut(s)	328
ErhI	CCWWGG	1 cut(s)	328
Esp3I	CGTCTC	1 cut(s)	211
FaeI	CATG	5 cut(s)	87, 146, 447, 454, 485
FaqI	GGGAC	1 cut(s)	79
FatI	CATG	5 cut(s)	83, 142, 443, 450, 481
FauI	CCCGC	1 cut(s)	104
FblI	GTMKAC	1 cut(s)	252
Fnu4HI	GCNGC	1 cut(s)	174
FokI	GGATG	1 cut(s)	20
Fsp4HI	GCNGC	1 cut(s)	174
FspBI	CTAG	1 cut(s)	329
GlaI	GCGC	1 cut(s)	221
GluI	GCNGC	1 cut(s)	174
HaeII	RGCGCY	1 cut(s)	223
HaeIII	GGCC	1 cut(s)	279
HapII	CCGG	1 cut(s)	270
HhaI	GCGC	1 cut(s)	222
Hin1II	CATG	5 cut(s)	87, 146, 447, 454, 485
Hin6I	GCGC	1 cut(s)	220
HinP1I	GCGC	1 cut(s)	220
HincII	GTYRAC	2 cut(s)	301, 430
HindII	GTYRAC	2 cut(s)	301, 430
HindIII	AAGCTT	1 cut(s)	352
HinfI	GANTC	6 cut(s)	56, 92, 155, 258, 365, 499
HpaI	GTTAAC	1 cut(s)	301
HpaII	CCGG	1 cut(s)	270
HphI	GGTGA	1 cut(s)	466
Hpy166II	GTNNAC	3 cut(s)	253, 301, 430
Hpy188I	TCNGA	4 cut(s)	151, 199, 308, 462
Hpy8I	GTNNAC	3 cut(s)	253, 301, 430
HpyAV	CCTTC	1 cut(s)	279
HpyCH4IV	ACGT	1 cut(s)	204
HpyF3I	CTNAG	4 cut(s)	16, 198, 291, 305
HpySE526I	ACGT	1 cut(s)	204
Hsp92II	CATG	5 cut(s)	87, 146, 447, 454, 485
HspAI	GCGC	1 cut(s)	220
KroI	GCCGGC	1 cut(s)	269
KroNI	GCCGGC	1 cut(s)	271
KspAI	GTTAAC	1 cut(s)	301
Kzo9I	GATC	2 cut(s)	184, 395
LmnI	GCTCC	2 cut(s)	332, 523
LweI	GCATC	1 cut(s)	256
MaeI	CTAG	1 cut(s)	329
MaeII	ACGT	1 cut(s)	204
MaeIII	GTNAC	1 cut(s)	446
MalI	GATC	2 cut(s)	186, 397
MboI	GATC	2 cut(s)	184, 395
MboII	GAAGA	4 cut(s)	61, 164, 395, 432
MhlI	GDGCHC	1 cut(s)	83
MlsI	TGGCCA	1 cut(s)	279
MluCI	AATT	1 cut(s)	371
MluNI	TGGCCA	1 cut(s)	279
MlyI	GAGTC	3 cut(s)	101, 149, 359
MmeI	TCCRAC	1 cut(s)	259
MnlI	CCTC	5 cut(s)	116, 134, 157, 314, 379
Mox20I	TGGCCA	1 cut(s)	279
MroNI	GCCGGC	1 cut(s)	269
MscI	TGGCCA	1 cut(s)	279
MseI	TTAA	4 cut(s)	38, 300, 356, 538
Msp20I	TGGCCA	1 cut(s)	279
MspI	CCGG	1 cut(s)	270
MspR9I	CCNGG	3 cut(s)	133, 379, 522
MvaI	CCWGG	3 cut(s)	133, 379, 522
NaeI	GCCGGC	1 cut(s)	271
NdeII	GATC	2 cut(s)	184, 395
NgoMIV	GCCGGC	1 cut(s)	269
NlaIII	CATG	5 cut(s)	87, 146, 447, 454, 485
NlaIV	GGNNCC	4 cut(s)	48, 233, 390, 519
NmeAIII	GCCGAG	1 cut(s)	241
PdiI	GCCGGC	1 cut(s)	271
PfeI	GAWTC	3 cut(s)	56, 258, 499
PkrI	GCNGC	1 cut(s)	175
PleI	GAGTC	3 cut(s)	100, 149, 359
PpsI	GAGTC	3 cut(s)	100, 149, 359
Psp6I	CCWGG	3 cut(s)	131, 377, 520
PspGI	CCWGG	3 cut(s)	131, 377, 520
PspN4I	GGNNCC	4 cut(s)	48, 233, 390, 519
PstNI	CAGNNNCTG	1 cut(s)	197
RsaI	GTAC	1 cut(s)	203
RsaNI	GTAC	1 cut(s)	202
SaqAI	TTAA	4 cut(s)	38, 300, 356, 538
SatI	GCNGC	1 cut(s)	174
Sau3AI	GATC	2 cut(s)	184, 395
SchI	GAGTC	3 cut(s)	101, 149, 359
ScrFI	CCNGG	3 cut(s)	133, 379, 522
SduI	GDGCHC	1 cut(s)	83
SetI	ASST	8 cut(s)	45, 108, 126, 207, 306, 337, 356, 390
SfaNI	GCATC	1 cut(s)	256
Sse9I	AATT	1 cut(s)	371
SsiI	CCGC	2 cut(s)	97, 174
SspMI	CTAG	1 cut(s)	329
StyD4I	CCNGG	3 cut(s)	131, 377, 520
StyI	CCWWGG	1 cut(s)	328
TaiI	ACGT	1 cut(s)	207
TaqI	TCGA	1 cut(s)	90
TasI	AATT	1 cut(s)	371
TauI	GCSGC	1 cut(s)	176
TfiI	GAWTC	3 cut(s)	56, 258, 499
Tru1I	TTAA	4 cut(s)	38, 300, 356, 538
Tru9I	TTAA	4 cut(s)	38, 300, 356, 538
TscAI	CASTG	1 cut(s)	185
TspDTI	ATGAA	3 cut(s)	17, 250, 432
TspGWI	ACGGA	2 cut(s)	238, 270
TspRI	CASTG	1 cut(s)	185
XmaJI	CCTAGG	1 cut(s)	328
XmiI	GTMKAC	1 cut(s)	252
XspI	CTAG	1 cut(s)	329

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