Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0001017

Physical Location & Seq

Genomic Coordinates Forward (+)

18586452 .. 18586736

Gene Structure 285 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0117600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 285 bp

ATGGAAGGTTTTAATACGATAGAAGTTGGGTCAGATGCACTGAATGTGATCAAGGCAATCAATCGTGTTGATAGTGACCTGAGCGTGGAGGGTGCAGTATTTGATGAAATAAGGTGTCTTAAGCATTCATTCACTGAGATTACGTGGAGGAAGATTGCACATCGATGCAATAATATAGCTTATTGTCTTGCCAAAGCAGCGTTGCGCAGCACTGGTATTAGGTTTTGGAAAGAAGCTGGGCCTCTATGGCTTATTGATATTGTAATGGCAGAAAAGTCTAGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006082 GO:0006629 GO:0006631 GO:0006633 GO:0008150 GO:0008152 GO:0008610 GO:0008922 GO:0009058 GO:0009507 GO:0009526 GO:0009536 GO:0009941 GO:0009987 GO:0015645 GO:0016053 GO:0016874 GO:0016877 GO:0016878 GO:0019752 GO:0030497 GO:0031967 GO:0031975 GO:0032787 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0044281 GO:0044283 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046394 GO:0071704 GO:0072330 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00061 ko00071 ko01100 ko01212 ko02024 ko03320 ko04146 ko04216 ko04714 ko04920 map00061 map00071 map01100 map01212 map02024 map03320 map04146 map04216 map04714 map04920

Pfam Domains

Protein Families

AMP-binding

Protein Analysis

94

Amino Acids

10.56

Weight (kDa)

6.71

Isoelectric Point (pI)

34.54

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_3	PF13456	3 - 67	1.3e-06	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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Orthologous Genes (Group: OG0001017)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G23790 AT4G14070
fragaria_vesca	FvH4_4g13140 FvH4_4g13151 FvH4_4g13151 FvH4_4g13151 FvH4_4g13151 FvH4_4g13151 FvH4_4g13151 FvH4_4g13151 FvH4_4g13151
malus_domestica	MD04G1018700.v1.1 MD04G1018900.v1.1
prunus_persica	Prupe.1G167500_v2.0.a1 Prupe.1G167500_v2.0.a1 Prupe.1G167500_v2.0.a1 Prupe.1G167500_v2.0.a1 Prupe.1G167500_v2.0.a1 Prupe.1G167500_v2.0.a1 Prupe.1G167500_v2.0.a1 Prupe.1G167500_v2.0.a1 Prupe.1G168200_v2.0.a1 Prupe.1G168200_v2.0.a1 Prupe.1G168200_v2.0.a1 Prupe.1G187500_v2.0.a1
pyrus_communis	pycom04g01500 pycom04g01510
rosa_chinensis	RchiOBHm_Chr4g0412911 RchiOBHm_Chr4g0413021 RchiOBHm_Chr4g0413231
rosa_laevigata	RLG00000008230 RLG00000008244 RLG00000008246
rosa_multiflora	Rmu_sc0000717.1_g000026 Rmu_sc0005849.1_g000011 Rmu_sc0021560.1_g000001
rosa_roxburghii	Rroxscaffold_5G00357150 Rroxscaffold_5G00357210
rosa_rugosa	Rorug04G0117500 Rorug04G0117600 Rorug04G0117700 Rorug04G0117800 Rorug04G0117900 Rorug04G0118000 Rorug04G0118000 Rorug04G0118100 Rorug04G0118100 Rorug04G0118600
rosa_samantha	Rh4AG176400 Rh4AG177100 Rh4AG178600 Rh4BG177000 Rh4BG177900 Rh4CG187400 Rh4CG188100 Rh4CG189200 Rh4DG173700 Rh4DG173900
rosa_wichuraiana	Rw4G014810 Rw4G014820 Rw4G014850

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	206
AfiI	CCNNNNNNNGG	1 cut(s)	85
AflII	CTTAAG	1 cut(s)	119
AluBI	AGCT	2 cut(s)	179, 236
AluI	AGCT	2 cut(s)	179, 236
AoxI	GGCC	1 cut(s)	239
ApeKI	GCWGC	2 cut(s)	197, 207
AspLEI	GCGC	1 cut(s)	207
AspS9I	GGNCC	1 cut(s)	239
BbvI	GCAGC	2 cut(s)	209, 219
BclI	TGATCA	1 cut(s)	48
BfaI	CTAG	1 cut(s)	279
BfrI	CTTAAG	1 cut(s)	119
BglI	GCCNNNNNGGC	1 cut(s)	247
BisI	GCNGC	2 cut(s)	198, 208
BlsI	GCNGC	2 cut(s)	199, 209
BmgT120I	GGNCC	1 cut(s)	239
BmsI	GCATC	2 cut(s)	25, 155
Bpu10I	CCTNAGC	1 cut(s)	80
Bsa29I	ATCGAT	1 cut(s)	163
BsaAI	YACGTR	1 cut(s)	144
Bsc4I	CCNNNNNNNGG	1 cut(s)	85
Bse1I	ACTGG	1 cut(s)	217
BseCI	ATCGAT	1 cut(s)	163
BseLI	CCNNNNNNNGG	1 cut(s)	85
BseMII	CTCAG	2 cut(s)	71, 126
BseNI	ACTGG	1 cut(s)	217
BseXI	GCAGC	2 cut(s)	209, 219
BseYI	CCCAGC	1 cut(s)	236
BsgI	GTGCAG	1 cut(s)	114
BshFI	GGCC	1 cut(s)	241
BshVI	ATCGAT	1 cut(s)	163
BslI	CCNNNNNNNGG	1 cut(s)	85
BsmI	GAATGC	1 cut(s)	124
BsnI	GGCC	1 cut(s)	241
Bsp143I	GATC	1 cut(s)	48
BspANI	GGCC	1 cut(s)	241
BspCNI	CTCAG	2 cut(s)	72, 127
BspDI	ATCGAT	1 cut(s)	163
BspTI	CTTAAG	1 cut(s)	119
BsrI	ACTGG	1 cut(s)	217
BssMI	GATC	1 cut(s)	48
BstAFI	CTTAAG	1 cut(s)	119
BstBAI	YACGTR	1 cut(s)	144
BstDEI	CTNAG	2 cut(s)	80, 135
BstHHI	GCGC	1 cut(s)	207
BstKTI	GATC	1 cut(s)	51
BstMBI	GATC	1 cut(s)	48
BstMWI	GCNNNNNNNGC	2 cut(s)	197, 247
BstV1I	GCAGC	2 cut(s)	209, 219
Bsu15I	ATCGAT	1 cut(s)	163
BsuRI	GGCC	1 cut(s)	241
BsuTUI	ATCGAT	1 cut(s)	163
BtsIMutI	CAGTG	3 cut(s)	38, 132, 210
CfoI	GCGC	1 cut(s)	207
Cfr13I	GGNCC	1 cut(s)	239
ClaI	ATCGAT	1 cut(s)	163
CviJI	RGCY	4 cut(s)	179, 236, 241, 250
CviKI_1	RGCY	4 cut(s)	179, 236, 241, 250
DdeI	CTNAG	2 cut(s)	80, 135
DpnI	GATC	1 cut(s)	50
DpnII	GATC	1 cut(s)	48
FaiI	YATR	2 cut(s)	176, 247
FbaI	TGATCA	1 cut(s)	48
Fnu4HI	GCNGC	2 cut(s)	198, 208
Fsp4HI	GCNGC	2 cut(s)	198, 208
FspBI	CTAG	1 cut(s)	279
FspI	TGCGCA	1 cut(s)	206
GlaI	GCGC	1 cut(s)	206
GluI	GCNGC	2 cut(s)	198, 208
GsaI	CCCAGC	1 cut(s)	240
HaeIII	GGCC	1 cut(s)	241
HhaI	GCGC	1 cut(s)	207
Hin6I	GCGC	1 cut(s)	205
HinP1I	GCGC	1 cut(s)	205
Hpy188I	TCNGA	1 cut(s)	34
HpyCH4IV	ACGT	1 cut(s)	143
HpyCH4V	TGCA	4 cut(s)	38, 95, 158, 168
HpyF10VI	GCNNNNNNNGC	2 cut(s)	197, 247
HpyF3I	CTNAG	2 cut(s)	80, 135
HpySE526I	ACGT	1 cut(s)	143
HspAI	GCGC	1 cut(s)	205
Ksp22I	TGATCA	1 cut(s)	48
Kzo9I	GATC	1 cut(s)	48
LpnPI	CCDG	3 cut(s)	92, 198, 222
Lsp1109I	GCAGC	2 cut(s)	209, 219
LweI	GCATC	2 cut(s)	25, 155
MaeI	CTAG	1 cut(s)	279
MaeII	ACGT	1 cut(s)	143
MaeIII	GTNAC	1 cut(s)	74
MalI	GATC	1 cut(s)	50
MboI	GATC	1 cut(s)	48
MboII	GAAGA	1 cut(s)	163
MnlI	CCTC	3 cut(s)	82, 141, 252
MseI	TTAA	2 cut(s)	12, 120
MslI	CAYNNNNRTG	1 cut(s)	163
MspCI	CTTAAG	1 cut(s)	119
Mva1269I	GAATGC	1 cut(s)	124
MwoI	GCNNNNNNNGC	2 cut(s)	197, 247
NdeII	GATC	1 cut(s)	48
NmuCI	GTSAC	1 cut(s)	74
NsbI	TGCGCA	1 cut(s)	206
PctI	GAATGC	1 cut(s)	124
PkrI	GCNGC	2 cut(s)	199, 209
Ppu21I	YACGTR	1 cut(s)	144
PspFI	CCCAGC	1 cut(s)	236
PspPI	GGNCC	1 cut(s)	239
RseI	CAYNNNNRTG	1 cut(s)	163
SaqAI	TTAA	2 cut(s)	12, 120
SatI	GCNGC	2 cut(s)	198, 208
Sau3AI	GATC	1 cut(s)	48
Sau96I	GGNCC	1 cut(s)	239
SetI	ASST	7 cut(s)	10, 81, 116, 146, 181, 224, 238
SfaNI	GCATC	2 cut(s)	25, 155
SgeI	CNNG	8 cut(s)	64, 77, 91, 97, 156, 200, 225, 249
SmiMI	CAYNNNNRTG	1 cut(s)	163
SmlI	CTYRAG	1 cut(s)	119
SmoI	CTYRAG	1 cut(s)	119
SspMI	CTAG	1 cut(s)	279
TaiI	ACGT	1 cut(s)	146
TaqI	TCGA	1 cut(s)	163
Tru1I	TTAA	2 cut(s)	12, 120
Tru9I	TTAA	2 cut(s)	12, 120
TscAI	CASTG	3 cut(s)	45, 139, 217
TseFI	GTSAC	1 cut(s)	74
TseI	GCWGC	2 cut(s)	197, 207
Tsp45I	GTSAC	1 cut(s)	74
TspDTI	ATGAA	2 cut(s)	117, 120
TspRI	CASTG	3 cut(s)	45, 139, 217
Vha464I	CTTAAG	1 cut(s)	119
XspI	CTAG	1 cut(s)	279

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