Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000007

Orthogroup ID

OG0002557

Physical Location & Seq

Genomic Coordinates Reverse (-)

18887728 .. 18888724

Gene Structure 997 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_7G00179260.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 255 bp

ATGACTGCGAATGCTAATCTTCTATATGATATTGACTACAACAGCATCACTAAAGTGAAGATGGAAAATGGAATGTTGGTTGACACAAAAGGCAAAGGAAGTATTGCGTTGGAAACCAAAAATGAAAAAATGTTCATTAGAGATGTAATGTTAGTTCCGGATGTTGATTCAAATTTGCTAAGTTTTGGTCAACTCATTGAGCACTCATATCACCTACAATTTGGTGACAACACTAGCAAGATCTTCGAGAGATGA

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

DUF4219 Retrotran_gag_2 gag_pre-integrs rve zf-CCHC

Protein Analysis

84

Amino Acids

9.56

Weight (kDa)

5.18

Isoelectric Point (pI)

19.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Pol_BBD	PF22936	1 - 70	8.5e-14	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)
AccIII	TCCGGA	1 cut(s)	157
AcsI	RAATTY	1 cut(s)	172
AgsI	TTSAA	1 cut(s)	171
AleI	CACNNNNGTG	1 cut(s)	53
Alw21I	GWGCWC	1 cut(s)	204
Aor13HI	TCCGGA	1 cut(s)	157
ApoI	RAATTY	1 cut(s)	172
AsuHPI	GGTGA	2 cut(s)	203, 236
Bbv12I	GWGCWC	1 cut(s)	204
BccI	CCATC	1 cut(s)	55
BcgI	CGANNNNNNTGC	1 cut(s)	226
BfaI	CTAG	1 cut(s)	234
BglII	AGATCT	1 cut(s)	240
BmsI	GCATC	1 cut(s)	54
BsaWI	WCCGGW	1 cut(s)	157
BseAI	TCCGGA	1 cut(s)	157
BseGI	GGATG	1 cut(s)	166
BsiHKAI	GWGCWC	1 cut(s)	204
BsiSI	CCGG	1 cut(s)	158
BsmI	GAATGC	1 cut(s)	16
Bsp1286I	GDGCHC	1 cut(s)	204
Bsp13I	TCCGGA	1 cut(s)	157
Bsp143I	GATC	1 cut(s)	240
BspEI	TCCGGA	1 cut(s)	157
BssMI	GATC	1 cut(s)	240
BstDEI	CTNAG	1 cut(s)	179
BstF5I	GGATG	1 cut(s)	166
BstKTI	GATC	1 cut(s)	243
BstMBI	GATC	1 cut(s)	240
BstX2I	RGATCY	1 cut(s)	240
BstYI	RGATCY	1 cut(s)	240
BtsCI	GGATG	1 cut(s)	166
DdeI	CTNAG	1 cut(s)	179
DpnI	GATC	1 cut(s)	242
DpnII	GATC	1 cut(s)	240
FaiI	YATR	3 cut(s)	25, 27, 208
FokI	GGATG	1 cut(s)	173
FspBI	CTAG	1 cut(s)	234
HapII	CCGG	1 cut(s)	158
HincII	GTYRAC	2 cut(s)	82, 191
HindII	GTYRAC	2 cut(s)	82, 191
HinfI	GANTC	1 cut(s)	167
HpaII	CCGG	1 cut(s)	158
HphI	GGTGA	2 cut(s)	203, 236
Hpy166II	GTNNAC	2 cut(s)	82, 191
Hpy188III	TCNNGA	2 cut(s)	158, 247
Hpy8I	GTNNAC	2 cut(s)	82, 191
HpyF3I	CTNAG	1 cut(s)	179
Kpn2I	TCCGGA	1 cut(s)	157
Kzo9I	GATC	1 cut(s)	240
LpnPI	CCDG	1 cut(s)	171
LweI	GCATC	1 cut(s)	54
MaeI	CTAG	1 cut(s)	234
MaeIII	GTNAC	1 cut(s)	224
MalI	GATC	1 cut(s)	242
MboI	GATC	1 cut(s)	240
MboII	GAAGA	3 cut(s)	11, 70, 235
MflI	RGATCY	1 cut(s)	240
MhlI	GDGCHC	1 cut(s)	204
MluCI	AATT	2 cut(s)	172, 218
MmeI	TCCRAC	1 cut(s)	90
MroI	TCCGGA	1 cut(s)	157
MslI	CAYNNNNRTG	1 cut(s)	53
MspI	CCGG	1 cut(s)	158
Mva1269I	GAATGC	1 cut(s)	16
NdeII	GATC	1 cut(s)	240
NmuCI	GTSAC	1 cut(s)	224
OliI	CACNNNNGTG	1 cut(s)	53
PctI	GAATGC	1 cut(s)	16
PfeI	GAWTC	1 cut(s)	167
PsrI	GAACNNNNNNTAC	2 cut(s)	138, 170
PsuI	RGATCY	1 cut(s)	240
RseI	CAYNNNNRTG	1 cut(s)	53
Sau3AI	GATC	1 cut(s)	240
SduI	GDGCHC	1 cut(s)	204
SetI	ASST	1 cut(s)	216
SfaNI	GCATC	1 cut(s)	54
SgeI	CNNG	3 cut(s)	170, 246, 250
SmiMI	CAYNNNNRTG	1 cut(s)	53
Sse9I	AATT	2 cut(s)	172, 218
SspMI	CTAG	1 cut(s)	234
TaqI	TCGA	1 cut(s)	246
TasI	AATT	2 cut(s)	172, 218
TfiI	GAWTC	1 cut(s)	167
TseFI	GTSAC	1 cut(s)	224
Tsp45I	GTSAC	1 cut(s)	224
TspDTI	ATGAA	2 cut(s)	124, 138
XapI	RAATTY	1 cut(s)	172
XspI	CTAG	1 cut(s)	234

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