Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0001276

Physical Location & Seq

Genomic Coordinates Reverse (-)

61208091 .. 61208540

Gene Structure 450 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00381140.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 363 bp

ATGGTAGAGAAGGACTGTAATCCGAATTTGAGTACCTTCAATGTGGTGATTGATGGATTGTGTAGATGTAGGGTTGTTGATGAAGCCATTGAGTTGAAAAAATCGATGGTTAAGAAGGGATTGACACCGATAGGTTTGAATCCCGACCGCACCATGTACATTGCTTTGATTGATGGATTCTTGAAAGAAAATAACGTGGATAAGGCCCTCGGGATCAAAGAAGAGATGGTCGCTCTAGGAGTTAAGTTGTGCGGTGTCACATATAATGTGATTTTTGCAGGGATATGTAAAATAGGTAAGATGGAGAAGGCAGAATCTCTTTTGAATGAGATGAATGCTATGGGAATTGAACCTAATACCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko00260 ko00261 ko00270 ko00300 ko01100 ko01110 ko01120 ko01130 ko01210 ko01230 map00260 map00261 map00270 map00300 map01100 map01110 map01120 map01130 map01210 map01230

Pfam Domains

Protein Families

Mem_trans PPR PPR_1 PPR_2 PPR_3 PPR_long

Protein Analysis

120

Amino Acids

13.15

Weight (kDa)

5.5

Isoelectric Point (pI)

14.97

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_1	PF12854	4 - 37	5.7e-10	PPR repeat
PPR_2	PF13041	8 - 43	3.9e-08	PPR repeat family
PPR	PF01535	11 - 41	1.2e-06	PPR repeat
PPR_3	PF13812	72 - 119	4e-06	Pentatricopeptide repeat domain
PPR_2	PF13041	86 - 120	3e-10	PPR repeat family
PPR	PF01535	86 - 116	7.2e-07	PPR repeat

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: OG0001276)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G61990
fragaria_vesca	FvH4_5g09340 FvH4_5g09340 FvH4_5g09340 FvH4_5g09340
malus_domestica	MD06G1131900.v1.1 MD14G1148300.v1.1
prunus_persica	Prupe.5G142900_v2.0.a1 Prupe.5G142900_v2.0.a1
pyrus_communis	pycom06g12350 pycom14g12300
rosa_chinensis	RchiOBHm_Chr1g0325241 RchiOBHm_Chr1g0325261 RchiOBHm_Chr2g0162681 RchiOBHm_Chr7g0188811 RchiOBHm_Chr7g0229441
rosa_laevigata	RLG00000004657 RLG00000028121 RLG00000028122 RLG00000031426 RLG00000035825
rosa_multiflora	Rmu_sc0001621.1_g000013 Rmu_sc0001918.1_g000006 Rmu_sc0004279.1_g000018 Rmu_sc0034360.1_g000001 Rmu_sc0034361.1_g000001
rosa_roxburghii	Rroxscaffold_3G00266000 Rroxscaffold_5G00381140
rosa_rugosa	Rorug02G0360500 Rorug05G0369000 Rorug06G0494100 Rorug07G0156300
rosa_samantha	Rh1BG033100 Rh2CG348200 Rh2CG348300 Rh4AG001800 Rh4AG163800 Rh4BG001600 Rh4BG400000 Rh4BG400100 Rh4CG415000 Rh4CG415100 Rh6DG332400 Rh6DG332500 Rh7AG098900 Rh7AG408500 Rh7BG100600 Rh7CG102100 Rh7CG477400 Rh7DG100700 Rh7DG406300 Rh7DG406400 Rh7DG446700
rosa_wichuraiana	Rw0G022150 Rw7G008520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	148, 252
AclWI	GGATC	1 cut(s)	221
AcsI	RAATTY	1 cut(s)	25
AfaI	GTAC	2 cut(s)	34, 158
AgsI	TTSAA	6 cut(s)	40, 97, 139, 184, 325, 350
AlwI	GGATC	1 cut(s)	221
Ama87I	CYCGRG	1 cut(s)	209
AoxI	GGCC	1 cut(s)	204
ApoI	RAATTY	1 cut(s)	25
AspS9I	GGNCC	1 cut(s)	205
AsuHPI	GGTGA	1 cut(s)	58
AvaI	CYCGRG	1 cut(s)	209
BccI	CCATC	5 cut(s)	47, 100, 167, 220, 295
BfaI	CTAG	2 cut(s)	236, 361
BmeT110I	CYCGRG	1 cut(s)	209
BmgT120I	GGNCC	1 cut(s)	205
Bsa29I	ATCGAT	1 cut(s)	104
BsaJI	CCNNGG	1 cut(s)	208
Bse3DI	GCAATG	1 cut(s)	159
BseCI	ATCGAT	1 cut(s)	104
BseDI	CCNNGG	1 cut(s)	208
BseMI	GCAATG	1 cut(s)	159
Bsh1285I	CGRYCG	1 cut(s)	148
BshFI	GGCC	1 cut(s)	206
BshVI	ATCGAT	1 cut(s)	104
BsiEI	CGRYCG	1 cut(s)	148
BsiHKCI	CYCGRG	1 cut(s)	209
BsmI	GAATGC	1 cut(s)	340
BsnI	GGCC	1 cut(s)	206
BsoBI	CYCGRG	1 cut(s)	209
Bsp1407I	TGTACA	1 cut(s)	156
Bsp143I	GATC	1 cut(s)	213
BspACI	CCGC	2 cut(s)	148, 252
BspANI	GGCC	1 cut(s)	206
BspDI	ATCGAT	1 cut(s)	104
BspPI	GGATC	1 cut(s)	221
BsrDI	GCAATG	1 cut(s)	159
BsrGI	TGTACA	1 cut(s)	156
BssECI	CCNNGG	1 cut(s)	208
BssMI	GATC	1 cut(s)	213
Bst4CI	ACNGT	1 cut(s)	17
Bst6I	CTCTTC	1 cut(s)	216
BstAUI	TGTACA	1 cut(s)	156
BstKTI	GATC	1 cut(s)	216
BstMBI	GATC	1 cut(s)	213
BstMCI	CGRYCG	1 cut(s)	148
Bsu15I	ATCGAT	1 cut(s)	104
BsuRI	GGCC	1 cut(s)	206
BsuTUI	ATCGAT	1 cut(s)	104
Cfr13I	GGNCC	1 cut(s)	205
ClaI	ATCGAT	1 cut(s)	104
Csp6I	GTAC	2 cut(s)	33, 157
CviAII	CATG	1 cut(s)	154
CviJI	RGCY	2 cut(s)	86, 206
CviKI_1	RGCY	2 cut(s)	86, 206
CviQI	GTAC	2 cut(s)	33, 157
DpnI	GATC	1 cut(s)	215
DpnII	GATC	1 cut(s)	213
Eam1104I	CTCTTC	1 cut(s)	216
EarI	CTCTTC	1 cut(s)	216
Eco88I	CYCGRG	1 cut(s)	209
EcoO109I	RGGNCCY	1 cut(s)	205
FaeI	CATG	1 cut(s)	157
FaiI	YATR	5 cut(s)	155, 262, 264, 286, 341
FatI	CATG	1 cut(s)	153
FspBI	CTAG	2 cut(s)	236, 361
HaeIII	GGCC	1 cut(s)	206
Hin1II	CATG	1 cut(s)	157
HinfI	GANTC	3 cut(s)	139, 177, 314
HphI	GGTGA	1 cut(s)	58
Hpy188I	TCNGA	1 cut(s)	24
Hpy188III	TCNNGA	3 cut(s)	143, 181, 211
HpyAV	CCTTC	4 cut(s)	4, 46, 109, 301
HpyCH4III	ACNGT	1 cut(s)	17
HpyCH4IV	ACGT	1 cut(s)	195
HpyCH4V	TGCA	1 cut(s)	278
HpySE526I	ACGT	1 cut(s)	195
Hsp92II	CATG	1 cut(s)	157
Kzo9I	GATC	1 cut(s)	213
LpnPI	CCDG	1 cut(s)	264
MaeI	CTAG	2 cut(s)	236, 361
MaeII	ACGT	1 cut(s)	195
MaeIII	GTNAC	1 cut(s)	256
MalI	GATC	1 cut(s)	215
MboI	GATC	1 cut(s)	213
MboII	GAAGA	1 cut(s)	233
MluCI	AATT	2 cut(s)	25, 345
MnlI	CCTC	1 cut(s)	218
MseI	TTAA	2 cut(s)	111, 243
Mva1269I	GAATGC	1 cut(s)	340
NdeII	GATC	1 cut(s)	213
NlaIII	CATG	1 cut(s)	157
NmuCI	GTSAC	1 cut(s)	256
PctI	GAATGC	1 cut(s)	340
PfeI	GAWTC	3 cut(s)	139, 177, 314
PspPI	GGNCC	1 cut(s)	205
RsaI	GTAC	2 cut(s)	34, 158
RsaNI	GTAC	2 cut(s)	33, 157
SaqAI	TTAA	2 cut(s)	111, 243
Sau3AI	GATC	1 cut(s)	213
Sau96I	GGNCC	1 cut(s)	205
SetI	ASST	6 cut(s)	38, 136, 198, 298, 355, 362
SgeI	CNNG	8 cut(s)	155, 166, 193, 208, 221, 223, 248, 291
Sse9I	AATT	2 cut(s)	25, 345
SsiI	CCGC	2 cut(s)	148, 252
SspMI	CTAG	2 cut(s)	236, 361
TaaI	ACNGT	1 cut(s)	17
TaiI	ACGT	1 cut(s)	198
TaqI	TCGA	1 cut(s)	104
TasI	AATT	2 cut(s)	25, 345
TatI	WGTACW	1 cut(s)	156
TfiI	GAWTC	3 cut(s)	139, 177, 314
Tru1I	TTAA	2 cut(s)	111, 243
Tru9I	TTAA	2 cut(s)	111, 243
TseFI	GTSAC	1 cut(s)	256
Tsp45I	GTSAC	1 cut(s)	256
TspDTI	ATGAA	2 cut(s)	96, 347
XapI	RAATTY	1 cut(s)	25
XspI	CTAG	2 cut(s)	236, 361

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