Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0001033

Physical Location & Seq

Genomic Coordinates Reverse (-)

33373199 .. 33374023

Gene Structure 825 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ56829

Sequence Viewer

CDS Protein Promoter (2k)

Length: 378 bp

ATGTACTTTTCAACTAAACGGCAGCAGTTTTTGATTGATCAAGGTTATAGTTTTAAGGTTATTACAAGCTTGCCTCCTCCTGAATCAGGAGCTGATTTGAGCAATCATCGTGTTGAAGACCAACTGGCACTACTCTCAAAGGTGTTGAGTGCTGGTGATGATAAAGTTGGTTTAGAGCCACATGACAATGATGCAGATGATATTTCCCTTCAGAAAGCACATCGTTCAACAGGATCCATGAGTGTGATGTCGGGTTCAGATGGGATGGTTTACATGGAATATAGTAATGAAAAACACAAGCACAGCAAAGTACAGGTGAAGAGTAAGCCAAGGGATCCGGCAAAGAGACATCATTTGTTTAAACAACGCCGTGGCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0008150 GO:0009314 GO:0009411 GO:0009416 GO:0009628 GO:0010224 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0050896

KEGG Pathways

Metabolic & Signaling

ko03022 ko03420 map03022 map03420

Pfam Domains

Protein Families

ERCC3_RAD25_C Helicase_C_3 ResIII

Protein Analysis

125

Amino Acids

14.08

Weight (kDa)

9.16

Isoelectric Point (pI)

44.38

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ERCC3_RAD25_C	PF16203	1 - 65	3.1e-14	ERCC3/RAD25/XPB C-terminal helicase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0001033)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G41360 AT5G41360 AT5G41370
fragaria_vesca	FvH4_5g02840 FvH4_5g02840 FvH4_5g02840 FvH4_5g02840 FvH4_5g02840 FvH4_5g19420 FvH4_5g19430 FvH4_7g08220 FvH4_7g08220
malus_domestica	MD06G1087900.v1.1
prunus_persica	Prupe.5G104000_v2.0.a1
pyrus_communis	pycom06g08400
rosa_chinensis	RchiOBHm_Chr1g0341611 RchiOBHm_Chr1g0341621 RchiOBHm_Chr1g0341861 RchiOBHm_Chr7g0197061 RchiOBHm_Chr7g0203931
rosa_laevigata	RLG00000003497 RLG00000003962 RLG00000029105 RLG00000029132
rosa_multiflora	Rmu_co8328521.1_g000001 Rmu_co8329503.1_g000001 Rmu_sc0002302.1_g000034 Rmu_sc0002322.1_g000070 Rmu_sc0003411.1_g000004 Rmu_sc0013871.1_g000001 Rmu_sc0032022.1_g000001
rosa_roxburghii	Rroxscaffold_3G00258690 Rroxscaffold_4G00312270 Rroxscaffold_4G00312590
rosa_rugosa	Rorug01G0154800.1 Rorug07G0037400 Rorug07G0079500
rosa_samantha	Rh1AG168500 Rh1AG170500 Rh1BG136800 Rh1BG138300 Rh1BG138400 Rh1CG156100 Rh1CG158700 Rh1DG170300 Rh1DG170600 Rh1DG170700 Rh7AG162300 Rh7AG209400 Rh7AG209500 Rh7BG164400 Rh7BG208200 Rh7BG208300 Rh7CG170500 Rh7CG221900 Rh7DG163800 Rh7DG216500
rosa_wichuraiana	Rw1G014160 Rw1G014180 Rw7G014170 Rw7G018250

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	4 cut(s)	228, 241, 329, 342
AcuI	CTGAAG	1 cut(s)	194
AfaI	GTAC	2 cut(s)	5, 312
AfiI	CCNNNNNNNGG	1 cut(s)	86
AgsI	TTSAA	3 cut(s)	12, 116, 228
AluBI	AGCT	2 cut(s)	69, 92
AluI	AGCT	2 cut(s)	69, 92
Alw26I	GTCTC	1 cut(s)	340
AlwI	GGATC	4 cut(s)	228, 241, 329, 342
AlwNI	CAGNNNCTG	1 cut(s)	92
ApeKI	GCWGC	1 cut(s)	22
AsuHPI	GGTGA	2 cut(s)	167, 328
BamHI	GGATCC	2 cut(s)	233, 334
BbsI	GAAGAC	1 cut(s)	123
BbvI	GCAGC	1 cut(s)	34
BccI	CCATC	2 cut(s)	254, 259
BceAI	ACGGC	2 cut(s)	35, 354
BclI	TGATCA	1 cut(s)	37
BcoDI	GTCTC	1 cut(s)	340
BisI	GCNGC	1 cut(s)	23
BlsI	GCNGC	1 cut(s)	24
BmiI	GGNNCC	2 cut(s)	235, 336
BmsI	GCATC	1 cut(s)	181
BpiI	GAAGAC	1 cut(s)	123
BsaJI	CCNNGG	2 cut(s)	329, 370
Bsc4I	CCNNNNNNNGG	1 cut(s)	86
Bse1I	ACTGG	1 cut(s)	129
BseDI	CCNNGG	2 cut(s)	329, 370
BseGI	GGATG	1 cut(s)	270
BseLI	CCNNNNNNNGG	1 cut(s)	86
BseNI	ACTGG	1 cut(s)	129
BseRI	GAGGAG	1 cut(s)	66
BseXI	GCAGC	1 cut(s)	34
BsiSI	CCGG	1 cut(s)	338
BslI	CCNNNNNNNGG	1 cut(s)	86
BsmAI	GTCTC	1 cut(s)	340
Bsp143I	GATC	3 cut(s)	37, 233, 334
BspLI	GGNNCC	2 cut(s)	235, 336
BspPI	GGATC	4 cut(s)	228, 241, 329, 342
BsrI	ACTGG	1 cut(s)	129
BssECI	CCNNGG	2 cut(s)	329, 370
BssMI	GATC	3 cut(s)	37, 233, 334
BssT1I	CCWWGG	1 cut(s)	329
Bst6I	CTCTTC	1 cut(s)	314
BstC8I	GCNNGC	1 cut(s)	71
BstDSI	CCRYGG	1 cut(s)	370
BstENI	CCTNNNNNAGG	1 cut(s)	84
BstF5I	GGATG	1 cut(s)	270
BstKTI	GATC	3 cut(s)	40, 236, 337
BstMAI	GTCTC	1 cut(s)	340
BstMBI	GATC	3 cut(s)	37, 233, 334
BstV1I	GCAGC	1 cut(s)	34
BstV2I	GAAGAC	1 cut(s)	123
BstX2I	RGATCY	2 cut(s)	233, 334
BstYI	RGATCY	2 cut(s)	233, 334
BtgI	CCRYGG	1 cut(s)	370
BtsCI	GGATG	1 cut(s)	270
Cac8I	GCNNGC	1 cut(s)	71
CaiI	CAGNNNCTG	1 cut(s)	92
Csp6I	GTAC	2 cut(s)	4, 311
CviAII	CATG	3 cut(s)	182, 238, 274
CviJI	RGCY	5 cut(s)	69, 92, 178, 328, 375
CviKI_1	RGCY	5 cut(s)	69, 92, 178, 328, 375
CviQI	GTAC	2 cut(s)	4, 311
DpnI	GATC	3 cut(s)	39, 235, 336
DpnII	GATC	3 cut(s)	37, 233, 334
DraI	TTTAAA	1 cut(s)	361
Eam1104I	CTCTTC	1 cut(s)	314
EarI	CTCTTC	1 cut(s)	314
Eco130I	CCWWGG	1 cut(s)	329
Eco57I	CTGAAG	1 cut(s)	194
EcoNI	CCTNNNNNAGG	1 cut(s)	84
EcoT14I	CCWWGG	1 cut(s)	329
ErhI	CCWWGG	1 cut(s)	329
FaeI	CATG	3 cut(s)	185, 241, 277
FaiI	YATR	5 cut(s)	48, 183, 239, 275, 282
FatI	CATG	3 cut(s)	181, 237, 273
FbaI	TGATCA	1 cut(s)	37
Fnu4HI	GCNGC	1 cut(s)	23
FokI	GGATG	1 cut(s)	277
Fsp4HI	GCNGC	1 cut(s)	23
GluI	GCNGC	1 cut(s)	23
HapII	CCGG	1 cut(s)	338
Hin1II	CATG	3 cut(s)	185, 241, 277
HindIII	AAGCTT	1 cut(s)	67
HinfI	GANTC	1 cut(s)	83
HpaII	CCGG	1 cut(s)	338
HphI	GGTGA	2 cut(s)	167, 328
Hpy166II	GTNNAC	1 cut(s)	271
Hpy188I	TCNGA	2 cut(s)	213, 259
Hpy188III	TCNNGA	2 cut(s)	80, 87
Hpy8I	GTNNAC	1 cut(s)	271
HpyAV	CCTTC	1 cut(s)	218
HpyCH4V	TGCA	1 cut(s)	194
Hsp92II	CATG	3 cut(s)	185, 241, 277
Ksp22I	TGATCA	1 cut(s)	37
Kzo9I	GATC	3 cut(s)	37, 233, 334
LmnI	GCTCC	1 cut(s)	89
LpnPI	CCDG	7 cut(s)	72, 93, 110, 138, 216, 299, 351
Lsp1109I	GCAGC	1 cut(s)	34
LweI	GCATC	1 cut(s)	181
MalI	GATC	3 cut(s)	39, 235, 336
MboI	GATC	3 cut(s)	37, 233, 334
MboII	GAAGA	2 cut(s)	128, 331
MflI	RGATCY	2 cut(s)	233, 334
MnlI	CCTC	2 cut(s)	84, 87
MseI	TTAA	2 cut(s)	54, 360
MslI	CAYNNNNRTG	2 cut(s)	186, 242
MspI	CCGG	1 cut(s)	338
MssI	GTTTAAAC	1 cut(s)	361
NdeII	GATC	3 cut(s)	37, 233, 334
NlaIII	CATG	3 cut(s)	185, 241, 277
NlaIV	GGNNCC	2 cut(s)	235, 336
PfeI	GAWTC	1 cut(s)	83
PkrI	GCNGC	1 cut(s)	24
PmeI	GTTTAAAC	1 cut(s)	361
PspN4I	GGNNCC	2 cut(s)	235, 336
PstNI	CAGNNNCTG	1 cut(s)	92
PsuI	RGATCY	2 cut(s)	233, 334
RsaI	GTAC	2 cut(s)	5, 312
RsaNI	GTAC	2 cut(s)	4, 311
RseI	CAYNNNNRTG	2 cut(s)	186, 242
SaqAI	TTAA	2 cut(s)	54, 360
SatI	GCNGC	1 cut(s)	23
Sau3AI	GATC	3 cut(s)	37, 233, 334
SetI	ASST	6 cut(s)	46, 60, 71, 94, 144, 318
SfaNI	GCATC	1 cut(s)	181
SmiMI	CAYNNNNRTG	2 cut(s)	186, 242
StyI	CCWWGG	1 cut(s)	329
TatI	WGTACW	2 cut(s)	3, 310
TfiI	GAWTC	1 cut(s)	83
Tru1I	TTAA	2 cut(s)	54, 360
Tru9I	TTAA	2 cut(s)	54, 360
TseI	GCWGC	1 cut(s)	22
TspDTI	ATGAA	1 cut(s)	303
XagI	CCTNNNNNAGG	1 cut(s)	84

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