Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0000710

Physical Location & Seq

Genomic Coordinates Forward (+)

33994789 .. 33998234

Gene Structure 3446 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00241750.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 270 bp

ATGGAACCCTTCATAAGACATCTAAATTGTCTGGCCAGTAATCATAGATCTCAGTTTGCTGCAGGAGGTTTTGTAATTAGGGGATTCCTTTGGAATACCTCTGGTTGCAGTAGCTCGACAGGTGGGAAGACTACAATTCTAGTTGTGGAAGCTACTGCCCTTCGAAATAGGCTGGAGTATGCTAAAGCGAAACGCTACAGGCGAATTGAGGTGGAAGGAGATTCAAAGCTCGTGATAGATGCTATAAGAGGAGCTACCACATCACCATAG

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

RVT_3

Protein Analysis

89

Amino Acids

9.77

Weight (kDa)

10.02

Isoelectric Point (pI)

56.71

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_3	PF13456	14 - 86	8.5e-09	Reverse transcriptase-like

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)

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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: OG0000710)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g18562 FvH4_2g17721 FvH4_2g21141 FvH4_2g33371 FvH4_3g14411 FvH4_3g25761 FvH4_3g27831 FvH4_4g02991 FvH4_4g13392 FvH4_4g17203 FvH4_4g27942 FvH4_5g15941 FvH4_5g16792 FvH4_5g24522 FvH4_5g27791 FvH4_5g35301 FvH4_6g16961 FvH4_6g18361 FvH4_6g18903 FvH4_6g21761 FvH4_6g31891
prunus_persica	Prupe.6G046000_v2.0.a1
pyrus_communis	pycom03g10270 pycom05g07740 pycom05g31010
rosa_chinensis	RchiOBHm_Chr1g0334811 RchiOBHm_Chr1g0356971 RchiOBHm_Chr1g0374401 RchiOBHm_Chr4g0404581
rosa_multiflora	Rmu_co8304929.1_g000001 Rmu_sc0001211.1_g000044 Rmu_sc0001651.1_g000019 Rmu_sc0001767.1_g000002 Rmu_sc0002248.1_g000001 Rmu_sc0002322.1_g000060 Rmu_sc0007034.1_g000034 Rmu_sc0007497.1_g000003 Rmu_sc0009436.1_g000009 Rmu_sc0010161.1_g000019 Rmu_ssc0000170.1_g000001
rosa_roxburghii	Rroxscaffold_3G00241750 Rroxscaffold_6G00400320 Rroxscaffold_7G00193750
rosa_rugosa	Rorug02G0062900 Rorug02G0235200 Rorug02G0436900 Rorug02G0593600 Rorug03G0104100 Rorug03G0181700 Rorug03G0204900 Rorug03G0234400 Rorug03G0264000 Rorug03G0264100 Rorug04G0142000 Rorug04G0183700 Rorug05G0147400 Rorug05G0276200 Rorug05G0339800 Rorug05G0353400 Rorug05G0417900 Rorug06G0461500 Rorug07G0017900 Rorug07G0067700 Rorug07G0166200 Rorug07G0205400
rosa_wichuraiana	Rw1G034260 Rw2G025350 Rw2G034810 Rw3G029390 Rw5G023470 Rw5G036860 Rw6G040600 Rw7G042610

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AcoI	YGGCCR	1 cut(s)	33
AgsI	TTSAA	1 cut(s)	225
AluBI	AGCT	4 cut(s)	114, 152, 229, 254
AluI	AGCT	4 cut(s)	114, 152, 229, 254
AoxI	GGCC	1 cut(s)	33
ApeKI	GCWGC	1 cut(s)	59
AsuHPI	GGTGA	1 cut(s)	255
AsuII	TTCGAA	1 cut(s)	163
BalI	TGGCCA	1 cut(s)	35
BauI	CACGAG	1 cut(s)	230
BbsI	GAAGAC	1 cut(s)	134
BbvI	GCAGC	1 cut(s)	46
BfaI	CTAG	1 cut(s)	140
BfmI	CTRYAG	2 cut(s)	60, 196
BglII	AGATCT	1 cut(s)	47
BisI	GCNGC	1 cut(s)	60
BlsI	GCNGC	1 cut(s)	61
BmiI	GGNNCC	1 cut(s)	6
BmsI	GCATC	1 cut(s)	229
BpiI	GAAGAC	1 cut(s)	134
BpmI	CTGGAG	1 cut(s)	194
Bpu14I	TTCGAA	1 cut(s)	163
BsaXI	ACNNNNNCTCC	2 cut(s)	57, 87
Bse1I	ACTGG	1 cut(s)	36
BseMII	CTCAG	1 cut(s)	65
BseNI	ACTGG	1 cut(s)	36
BseRI	GAGGAG	1 cut(s)	264
BseXI	GCAGC	1 cut(s)	46
BshFI	GGCC	1 cut(s)	35
BsnI	GGCC	1 cut(s)	35
Bsp119I	TTCGAA	1 cut(s)	163
Bsp143I	GATC	1 cut(s)	47
BspANI	GGCC	1 cut(s)	35
BspCNI	CTCAG	1 cut(s)	64
BspLI	GGNNCC	1 cut(s)	6
BspMAI	CTGCAG	1 cut(s)	64
BspT104I	TTCGAA	1 cut(s)	163
BsrI	ACTGG	1 cut(s)	36
BssMI	GATC	1 cut(s)	47
BssSI	CACGAG	1 cut(s)	230
Bst2BI	CACGAG	1 cut(s)	230
BstBI	TTCGAA	1 cut(s)	163
BstDEI	CTNAG	1 cut(s)	51
BstKTI	GATC	1 cut(s)	50
BstMBI	GATC	1 cut(s)	47
BstSFI	CTRYAG	2 cut(s)	60, 196
BstV1I	GCAGC	1 cut(s)	46
BstV2I	GAAGAC	1 cut(s)	134
BstX2I	RGATCY	1 cut(s)	47
BstYI	RGATCY	1 cut(s)	47
BsuRI	GGCC	1 cut(s)	35
CviJI	RGCY	6 cut(s)	35, 114, 152, 172, 229, 254
CviKI_1	RGCY	6 cut(s)	35, 114, 152, 172, 229, 254
DdeI	CTNAG	1 cut(s)	51
DpnI	GATC	1 cut(s)	49
DpnII	GATC	1 cut(s)	47
EaeI	YGGCCR	1 cut(s)	33
FaiI	YATR	5 cut(s)	14, 45, 180, 245, 268
Fnu4HI	GCNGC	1 cut(s)	60
Fsp4HI	GCNGC	1 cut(s)	60
FspBI	CTAG	1 cut(s)	140
GluI	GCNGC	1 cut(s)	60
GsuI	CTGGAG	1 cut(s)	194
HaeIII	GGCC	1 cut(s)	35
HinfI	GANTC	2 cut(s)	84, 221
HphI	GGTGA	1 cut(s)	255
Hpy188III	TCNNGA	1 cut(s)	232
HpyAV	CCTTC	3 cut(s)	19, 170, 209
HpyCH4V	TGCA	2 cut(s)	62, 108
HpyF3I	CTNAG	1 cut(s)	51
Kzo9I	GATC	1 cut(s)	47
LmnI	GCTCC	1 cut(s)	251
LpnPI	CCDG	7 cut(s)	17, 48, 49, 87, 105, 158, 184
Lsp1109I	GCAGC	1 cut(s)	46
LweI	GCATC	1 cut(s)	229
MaeI	CTAG	1 cut(s)	140
MalI	GATC	1 cut(s)	49
MboI	GATC	1 cut(s)	47
MboII	GAAGA	1 cut(s)	139
MflI	RGATCY	1 cut(s)	47
MlsI	TGGCCA	1 cut(s)	35
MluCI	AATT	4 cut(s)	25, 75, 135, 204
MluNI	TGGCCA	1 cut(s)	35
MnlI	CCTC	4 cut(s)	59, 109, 202, 242
Mox20I	TGGCCA	1 cut(s)	35
MscI	TGGCCA	1 cut(s)	35
Msp20I	TGGCCA	1 cut(s)	35
NdeII	GATC	1 cut(s)	47
NlaIV	GGNNCC	1 cut(s)	6
NspV	TTCGAA	1 cut(s)	163
PcsI	WCGNNNNNNNCGW	1 cut(s)	199
PfeI	GAWTC	2 cut(s)	84, 221
PkrI	GCNGC	1 cut(s)	61
PspN4I	GGNNCC	1 cut(s)	6
PstI	CTGCAG	1 cut(s)	64
PsuI	RGATCY	1 cut(s)	47
SatI	GCNGC	1 cut(s)	60
Sau3AI	GATC	1 cut(s)	47
SetI	ASST	8 cut(s)	70, 101, 116, 124, 154, 213, 231, 256
SfaNI	GCATC	1 cut(s)	229
SfcI	CTRYAG	2 cut(s)	60, 196
SfuI	TTCGAA	1 cut(s)	163
Sse9I	AATT	4 cut(s)	25, 75, 135, 204
SspMI	CTAG	1 cut(s)	140
TaqI	TCGA	2 cut(s)	116, 163
TasI	AATT	4 cut(s)	25, 75, 135, 204
TfiI	GAWTC	2 cut(s)	84, 221
TseI	GCWGC	1 cut(s)	59
XspI	CTAG	1 cut(s)	140

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