Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0002557

Physical Location & Seq

Genomic Coordinates Reverse (-)

59921032 .. 59922986

Gene Structure 1955 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00327310.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 279 bp

ATGGGAAACAGTTTGCGGATTGCTAATATTGGTTCAACTGTTATGCATACACCCTCTGCCTCTTTTAAATTGAAGAATGTGCTTCATGTCCCTGAGATAACTCATAATCTACTCTCTGTAAATCGATTTGTTACTGATAATAATTATGCATTTGTTCTTACTCCTTTTAGTTCAATGATCAAGGATTTGGGACTCAGGAGAACCCTTTCTCAGGGGTCAGTACATGATGGGGGGCAGATGGGGTATATCCCATCACCTTCACCTCATCTCCATCAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Retrotran_gag_2 Retrotran_gag_3 zf-CCHC_6

Protein Analysis

92

Amino Acids

10.1

Weight (kDa)

9.82

Isoelectric Point (pI)

57.68

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Pol_BBD	PF22936	3 - 46	2.7e-06	Pol polyprotein, beta-barrel domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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

Orthologous Genes (Group: OG0002557)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G48720
fragaria_vesca	FvH4_2g28692 FvH4_5g18842 FvH4_6g09151
malus_domestica	MD02G1224100.v1.1 MD05G1187300.v1.1 MD05G1333300.v1.1 MD11G1249500.v1.1 MD16G1029500.v1.1
prunus_persica	Prupe.5G008900_v2.0.a1 Prupe.6G200700_v2.0.a1 Prupe.7G019700_v2.0.a1
pyrus_communis	pycom01g03530 pycom02g12970 pycom02g19220 pycom05g10750 pycom09g02370 pycom10g16330 pycom14g07330 pycom15g16240
rosa_chinensis	RchiOBHm_Chr1g0340271 RchiOBHm_Chr1g0362001 RchiOBHm_Chr1g0382731 RchiOBHm_Chr2g0152171 RchiOBHm_Chr3g0480511 RchiOBHm_Chr4g0398841 RchiOBHm_Chr5g0081101 RchiOBHm_Chr7g0182361 RchiOBHm_Chr7g0237371
rosa_roxburghii	Rroxscaffold_160G00433850 Rroxscaffold_1G00001000 Rroxscaffold_1G00046300 Rroxscaffold_3G00252380 Rroxscaffold_3G00254550 Rroxscaffold_4G00320010 Rroxscaffold_4G00327310 Rroxscaffold_5G00336230 Rroxscaffold_7G00179260
rosa_samantha	Rh3BG173000
rosa_wichuraiana	Rw4G008490

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	16
AfaI	GTAC	1 cut(s)	222
AfiI	CCNNNNNNNGG	1 cut(s)	211
AgsI	TTSAA	3 cut(s)	36, 73, 174
Asp700I	GAANNNNTTC	1 cut(s)	205
AsuHPI	GGTGA	2 cut(s)	246, 252
BccI	CCATC	3 cut(s)	221, 232, 259
BclI	TGATCA	1 cut(s)	177
Bsa29I	ATCGAT	1 cut(s)	124
BsaXI	ACNNNNNCTCC	1 cut(s)	252
Bsc4I	CCNNNNNNNGG	1 cut(s)	211
BseCI	ATCGAT	1 cut(s)	124
BseLI	CCNNNNNNNGG	1 cut(s)	211
BseMII	CTCAG	3 cut(s)	84, 208, 224
BshVI	ATCGAT	1 cut(s)	124
BslFI	GGGAC	2 cut(s)	74, 204
BslI	CCNNNNNNNGG	1 cut(s)	211
BsmFI	GGGAC	2 cut(s)	74, 204
Bsp143I	GATC	1 cut(s)	177
BspACI	CCGC	1 cut(s)	16
BspCNI	CTCAG	3 cut(s)	85, 207, 223
BspDI	ATCGAT	1 cut(s)	124
BssMI	GATC	1 cut(s)	177
Bst4CI	ACNGT	2 cut(s)	11, 40
BstDEI	CTNAG	3 cut(s)	93, 194, 210
BstENI	CCTNNNNNAGG	1 cut(s)	209
BstKTI	GATC	1 cut(s)	180
BstMBI	GATC	1 cut(s)	177
Bsu15I	ATCGAT	1 cut(s)	124
BsuTUI	ATCGAT	1 cut(s)	124
ClaI	ATCGAT	1 cut(s)	124
Csp6I	GTAC	1 cut(s)	221
CviAII	CATG	2 cut(s)	86, 224
CviQI	GTAC	1 cut(s)	221
DdeI	CTNAG	3 cut(s)	93, 194, 210
DpnI	GATC	1 cut(s)	179
DpnII	GATC	1 cut(s)	177
DraI	TTTAAA	1 cut(s)	67
EcoNI	CCTNNNNNAGG	1 cut(s)	209
EcoT22I	ATGCAT	2 cut(s)	48, 151
FaeI	CATG	2 cut(s)	89, 227
FaiI	YATR	7 cut(s)	44, 48, 87, 105, 147, 225, 246
FaqI	GGGAC	2 cut(s)	74, 204
FatI	CATG	2 cut(s)	85, 223
FbaI	TGATCA	1 cut(s)	177
Hin1II	CATG	2 cut(s)	89, 227
HinfI	GANTC	1 cut(s)	192
HphI	GGTGA	2 cut(s)	246, 252
Hpy188III	TCNNGA	1 cut(s)	196
HpyAV	CCTTC	1 cut(s)	267
HpyCH4III	ACNGT	2 cut(s)	11, 40
HpyCH4V	TGCA	2 cut(s)	46, 149
HpyF3I	CTNAG	3 cut(s)	93, 194, 210
Hsp92II	CATG	2 cut(s)	89, 227
Ksp22I	TGATCA	1 cut(s)	177
Kzo9I	GATC	1 cut(s)	177
LpnPI	CCDG	3 cut(s)	105, 181, 197
MaeIII	GTNAC	1 cut(s)	130
MalI	GATC	1 cut(s)	179
MboI	GATC	1 cut(s)	177
MboII	GAAGA	1 cut(s)	85
MluCI	AATT	2 cut(s)	68, 142
MlyI	GAGTC	1 cut(s)	186
MnlI	CCTC	3 cut(s)	64, 70, 273
Mph1103I	ATGCAT	2 cut(s)	48, 151
MroXI	GAANNNNTTC	1 cut(s)	205
MseI	TTAA	1 cut(s)	66
NdeII	GATC	1 cut(s)	177
NlaIII	CATG	2 cut(s)	89, 227
NsiI	ATGCAT	2 cut(s)	48, 151
PdmI	GAANNNNTTC	1 cut(s)	205
PleI	GAGTC	1 cut(s)	186
PpsI	GAGTC	1 cut(s)	186
RsaI	GTAC	1 cut(s)	222
RsaNI	GTAC	1 cut(s)	221
SaqAI	TTAA	1 cut(s)	66
Sau3AI	GATC	1 cut(s)	177
SchI	GAGTC	1 cut(s)	186
SetI	ASST	2 cut(s)	259, 265
SgeI	CNNG	6 cut(s)	98, 104, 193, 208, 224, 236
Sse9I	AATT	2 cut(s)	68, 142
SsiI	CCGC	1 cut(s)	16
SspI	AATATT	1 cut(s)	28
TaaI	ACNGT	2 cut(s)	11, 40
TaqI	TCGA	1 cut(s)	124
TasI	AATT	2 cut(s)	68, 142
TatI	WGTACW	1 cut(s)	220
Tru1I	TTAA	1 cut(s)	66
Tru9I	TTAA	1 cut(s)	66
TspDTI	ATGAA	1 cut(s)	74
XagI	CCTNNNNNAGG	1 cut(s)	209
XmnI	GAANNNNTTC	1 cut(s)	205
Zsp2I	ATGCAT	2 cut(s)	48, 151

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