Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0001350

Physical Location & Seq

Genomic Coordinates Forward (+)

17121846 .. 17126048

Gene Structure 4203 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG081900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 426 bp

ATGCATCTCAACTTCAGAACCAAGAGTACCATCCAGCAACAATTGATGGATCCCACAATTAGTATTCCAGAAACAGCGGAAGTTGCAGTGTCTGTGGCTCATTTCCCTGCAAGTCAGGCAACCGAAACAGGCATAGCCAAGGCTCCACCTATCTCCGGAGCACCTAATTCAGGTCCCCTGAATATGTTTCCGCAGGAAGCACTGTCTGGTGCTGGTGTTGGTGCTGGTGCACTTGGATCCCTCGACTTCCTTAGAAACAATCATTTCCAAATGTTGCGCTCAATGTTACAAGCCAACCCACAAATTTTACAGCCCATGCTGCAGGAACTTGGAAAGCAAAACCCACAGCTTTTAAGATTAATTCAGGAGCACCATGTCGAGTTCCTTCAGTTAATAAATGAACCTCTTGAGGGTTCTGAAGGGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0031593 GO:0032182 GO:0043130 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0044877 GO:0070628 GO:0140030

KEGG Pathways

Metabolic & Signaling

ko03420 ko04141 map03420 map04141

Pfam Domains

Protein Families

UBA XPC-binding ubiquitin

Protein Analysis

141

Amino Acids

15.24

Weight (kDa)

5.41

Isoelectric Point (pI)

51.38

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
XPC-binding	PF09280	81 - 135	4e-19	XPC-binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001350)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G16190 AT1G16190 AT1G79650 AT1G79650 AT1G79650 AT1G79650
fragaria_vesca	FvH4_6g28060
malus_domestica	MD09G1229800.v1.1 MD17G1228500.v1.1
prunus_persica	Prupe.3G105900_v2.0.a1
pyrus_communis	pycom09g14830 pycom17g23110
rosa_chinensis	RchiOBHm_Chr1g0327471 RchiOBHm_Chr2g0131831
rosa_laevigata	RLG00000019212 RLG00000021652 RLG00000030713
rosa_multiflora	Rmu_sc0002700.1_g000003 Rmu_sc0003731.1_g000013 Rmu_ssc0000213.1_g000013
rosa_roxburghii	Rroxscaffold_1G00054010 Rroxscaffold_2G00112590 Rroxscaffold_2G00127890 Rroxscaffold_4G00302760 Rroxscaffold_5G00338170 Rroxscaffold_5G00341450 Rroxscaffold_5G00371080 Rroxscaffold_6G00390940 Rroxscaffold_6G00420830 Rroxscaffold_7G00196290 Rroxscaffold_7G00209730
rosa_rugosa	Rorug02G0107700 Rorug02G0299900 Rorug02G0300000 Rorug02G0300100 Rorug02G0476100
rosa_samantha	Rh1AG084200 Rh1CG081900 Rh1CG257900 Rh1DG088500 Rh2AG352100 Rh2BG359300 Rh2CG337700 Rh2DG376600 Rh4BG187800 Rh5AG270100 Rh5CG354000 Rh5CG379700 Rh6AG057900 Rh7AG341300 Rh7CG359200
rosa_wichuraiana	Rw1G006620 Rw2G028620

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccIII	TCCGGA	1 cut(s)	155
AciI	CCGC	2 cut(s)	77, 191
AclWI	GGATC	4 cut(s)	44, 57, 231, 244
AcsI	RAATTY	1 cut(s)	303
AcuI	CTGAAG	1 cut(s)	371
AfaI	GTAC	1 cut(s)	28
AfiI	CCNNNNNNNGG	3 cut(s)	155, 170, 410
AluBI	AGCT	1 cut(s)	349
AluI	AGCT	1 cut(s)	349
Alw21I	GWGCWC	3 cut(s)	163, 232, 372
Alw44I	GTGCAC	1 cut(s)	228
AlwI	GGATC	4 cut(s)	44, 57, 231, 244
AlwNI	CAGNNNCTG	1 cut(s)	92
Aor13HI	TCCGGA	1 cut(s)	155
ApaLI	GTGCAC	1 cut(s)	228
ApeKI	GCWGC	1 cut(s)	319
ApoI	RAATTY	1 cut(s)	303
AseI	ATTAAT	1 cut(s)	359
AspLEI	GCGC	1 cut(s)	279
AspS9I	GGNCC	1 cut(s)	173
AvaII	GGWCC	1 cut(s)	173
BaeGI	GKGCMC	1 cut(s)	232
BamHI	GGATCC	2 cut(s)	49, 236
Bbv12I	GWGCWC	3 cut(s)	163, 232, 372
BbvI	GCAGC	1 cut(s)	306
BccI	CCATC	2 cut(s)	38, 40
BfmI	CTRYAG	1 cut(s)	320
BisI	GCNGC	1 cut(s)	320
BlsI	GCNGC	1 cut(s)	321
Bme18I	GGWCC	1 cut(s)	173
BmgT120I	GGNCC	1 cut(s)	173
BmiI	GGNNCC	4 cut(s)	51, 144, 175, 238
BmsI	GCATC	1 cut(s)	13
BsaJI	CCNNGG	1 cut(s)	138
BsaWI	WCCGGW	1 cut(s)	155
Bsc4I	CCNNNNNNNGG	3 cut(s)	155, 170, 410
BseAI	TCCGGA	1 cut(s)	155
BseDI	CCNNGG	1 cut(s)	138
BseGI	GGATG	1 cut(s)	30
BseLI	CCNNNNNNNGG	3 cut(s)	155, 170, 410
BseSI	GKGCMC	1 cut(s)	232
BseXI	GCAGC	1 cut(s)	306
BsiHKAI	GWGCWC	3 cut(s)	163, 232, 372
BsiSI	CCGG	1 cut(s)	156
BslFI	GGGAC	1 cut(s)	159
BslI	CCNNNNNNNGG	3 cut(s)	155, 170, 410
BsmFI	GGGAC	1 cut(s)	159
Bsp1286I	GDGCHC	3 cut(s)	163, 232, 372
Bsp13I	TCCGGA	1 cut(s)	155
Bsp143I	GATC	2 cut(s)	49, 236
BspACI	CCGC	2 cut(s)	77, 191
BspEI	TCCGGA	1 cut(s)	155
BspLI	GGNNCC	4 cut(s)	51, 144, 175, 238
BspMAI	CTGCAG	1 cut(s)	324
BspPI	GGATC	4 cut(s)	44, 57, 231, 244
BssECI	CCNNGG	1 cut(s)	138
BssMI	GATC	2 cut(s)	49, 236
BssT1I	CCWWGG	1 cut(s)	138
Bst4CI	ACNGT	1 cut(s)	204
BstDEI	CTNAG	1 cut(s)	251
BstENI	CCTNNNNNAGG	1 cut(s)	168
BstF5I	GGATG	1 cut(s)	30
BstHHI	GCGC	1 cut(s)	279
BstKTI	GATC	2 cut(s)	52, 239
BstMBI	GATC	2 cut(s)	49, 236
BstMWI	GCNNNNNNNGC	3 cut(s)	83, 116, 319
BstSFI	CTRYAG	1 cut(s)	320
BstSLI	GKGCMC	1 cut(s)	232
BstV1I	GCAGC	1 cut(s)	306
BstX2I	RGATCY	2 cut(s)	49, 236
BstYI	RGATCY	2 cut(s)	49, 236
BtsCI	GGATG	1 cut(s)	30
BtsI	GCAGTG	1 cut(s)	93
BtsIMutI	CAGTG	2 cut(s)	93, 200
CaiI	CAGNNNCTG	1 cut(s)	92
CfoI	GCGC	1 cut(s)	279
Cfr13I	GGNCC	1 cut(s)	173
Csp6I	GTAC	1 cut(s)	27
CviAII	CATG	2 cut(s)	316, 374
CviJI	RGCY	6 cut(s)	98, 137, 143, 293, 313, 349
CviKI_1	RGCY	6 cut(s)	98, 137, 143, 293, 313, 349
CviQI	GTAC	1 cut(s)	27
DdeI	CTNAG	1 cut(s)	251
DpnI	GATC	2 cut(s)	51, 238
DpnII	GATC	2 cut(s)	49, 236
Eco130I	CCWWGG	1 cut(s)	138
Eco47I	GGWCC	1 cut(s)	173
Eco57I	CTGAAG	1 cut(s)	371
EcoNI	CCTNNNNNAGG	1 cut(s)	168
EcoO109I	RGGNCCY	1 cut(s)	173
EcoT14I	CCWWGG	1 cut(s)	138
EcoT22I	ATGCAT	1 cut(s)	6
ErhI	CCWWGG	1 cut(s)	138
FaeI	CATG	2 cut(s)	319, 377
FaiI	YATR	4 cut(s)	134, 185, 317, 375
FaqI	GGGAC	1 cut(s)	159
FatI	CATG	2 cut(s)	315, 373
Fnu4HI	GCNGC	1 cut(s)	320
FokI	GGATG	1 cut(s)	17
Fsp4HI	GCNGC	1 cut(s)	320
GlaI	GCGC	1 cut(s)	278
GluI	GCNGC	1 cut(s)	320
HapII	CCGG	1 cut(s)	156
HhaI	GCGC	1 cut(s)	279
Hin1II	CATG	2 cut(s)	319, 377
Hin6I	GCGC	1 cut(s)	277
HinP1I	GCGC	1 cut(s)	277
HpaII	CCGG	1 cut(s)	156
Hpy166II	GTNNAC	1 cut(s)	230
Hpy188I	TCNGA	2 cut(s)	17, 418
Hpy188III	TCNNGA	4 cut(s)	68, 156, 365, 407
Hpy8I	GTNNAC	1 cut(s)	230
HpyAV	CCTTC	2 cut(s)	395, 413
HpyCH4III	ACNGT	1 cut(s)	204
HpyCH4V	TGCA	5 cut(s)	4, 86, 110, 230, 322
HpyF10VI	GCNNNNNNNGC	3 cut(s)	83, 116, 319
HpyF3I	CTNAG	1 cut(s)	251
Hsp92II	CATG	2 cut(s)	319, 377
HspAI	GCGC	1 cut(s)	277
Kpn2I	TCCGGA	1 cut(s)	155
Kzo9I	GATC	2 cut(s)	49, 236
LmnI	GCTCC	3 cut(s)	148, 158, 367
Lsp1109I	GCAGC	1 cut(s)	306
LweI	GCATC	1 cut(s)	13
MaeIII	GTNAC	1 cut(s)	285
MalI	GATC	2 cut(s)	51, 238
MboI	GATC	2 cut(s)	49, 236
MfeI	CAATTG	1 cut(s)	41
MflI	RGATCY	2 cut(s)	49, 236
MhlI	GDGCHC	3 cut(s)	163, 232, 372
MluCI	AATT	5 cut(s)	41, 57, 166, 303, 360
MnlI	CCTC	3 cut(s)	251, 403, 414
Mph1103I	ATGCAT	1 cut(s)	6
MroI	TCCGGA	1 cut(s)	155
MseI	TTAA	3 cut(s)	353, 359, 392
MspA1I	CMGCKG	1 cut(s)	77
MspI	CCGG	1 cut(s)	156
MunI	CAATTG	1 cut(s)	41
MwoI	GCNNNNNNNGC	3 cut(s)	83, 116, 319
NdeII	GATC	2 cut(s)	49, 236
NlaIII	CATG	2 cut(s)	319, 377
NlaIV	GGNNCC	4 cut(s)	51, 144, 175, 238
NsiI	ATGCAT	1 cut(s)	6
PkrI	GCNGC	1 cut(s)	321
PpuMI	RGGWCCY	1 cut(s)	173
PshBI	ATTAAT	1 cut(s)	359
Psp5II	RGGWCCY	1 cut(s)	173
PspN4I	GGNNCC	4 cut(s)	51, 144, 175, 238
PspPI	GGNCC	1 cut(s)	173
PspPPI	RGGWCCY	1 cut(s)	173
PsrI	GAACNNNNNNTAC	2 cut(s)	10, 42
PstI	CTGCAG	1 cut(s)	324
PstNI	CAGNNNCTG	1 cut(s)	92
PsuI	RGATCY	2 cut(s)	49, 236
RsaI	GTAC	1 cut(s)	28
RsaNI	GTAC	1 cut(s)	27
SaqAI	TTAA	3 cut(s)	353, 359, 392
SatI	GCNGC	1 cut(s)	320
Sau3AI	GATC	2 cut(s)	49, 236
Sau96I	GGNCC	1 cut(s)	173
SduI	GDGCHC	3 cut(s)	163, 232, 372
SetI	ASST	5 cut(s)	151, 166, 175, 351, 406
SfaNI	GCATC	1 cut(s)	13
SfcI	CTRYAG	1 cut(s)	320
SinI	GGWCC	1 cut(s)	173
SmlI	CTYRAG	1 cut(s)	407
SmoI	CTYRAG	1 cut(s)	407
Sse9I	AATT	5 cut(s)	41, 57, 166, 303, 360
SsiI	CCGC	2 cut(s)	77, 191
StyI	CCWWGG	1 cut(s)	138
TaaI	ACNGT	1 cut(s)	204
TaqI	TCGA	2 cut(s)	243, 378
TasI	AATT	5 cut(s)	41, 57, 166, 303, 360
Tru1I	TTAA	3 cut(s)	353, 359, 392
Tru9I	TTAA	3 cut(s)	353, 359, 392
TscAI	CASTG	2 cut(s)	93, 207
TseI	GCWGC	1 cut(s)	319
TspDTI	ATGAA	1 cut(s)	414
TspRI	CASTG	2 cut(s)	93, 207
VneI	GTGCAC	1 cut(s)	228
VpaK11BI	GGWCC	1 cut(s)	173
VspI	ATTAAT	1 cut(s)	359
XagI	CCTNNNNNAGG	1 cut(s)	168
XapI	RAATTY	1 cut(s)	303
Zsp2I	ATGCAT	1 cut(s)	6

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