Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0001957

Physical Location & Seq

Genomic Coordinates Reverse (-)

33224297 .. 33228584

Gene Structure 4288 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00241170.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 273 bp

ATGTTATGTATGACTATGAAGACAATTAATCAGGCTGTCTTTCCTGGACTCCAAGGTGGTCCACACAATCACACCATATCTGGTTTAGCAGTTGCACTCAAGCAGGCCACAACTCCAGAGTTCAAAGCTTACCAAGAGCAAGTTCTCAGTAATTCCGCAAAATTCGCAGAGAGCTTGCTAGAGAAGGGCTATGATCTTGTCTCCGGTGGAACTGACAACCATTTAGTGTTGGTAAATTCGAGGGACAAGTCTAGGTATGTCTTGAGTCATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464

KEGG Pathways

Metabolic & Signaling

ko00260 ko00460 ko00630 ko00670 ko00680 ko01100 ko01110 ko01120 ko01130 ko01200 ko01230 ko01523 map00260 map00460 map00630 map00670 map00680 map01100 map01110 map01120 map01130 map01200 map01230 map01523

Pfam Domains

Protein Families

SHMT

Protein Analysis

90

Amino Acids

9.81

Weight (kDa)

7.93

Isoelectric Point (pI)

32.48

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SHMT	PF00464	6 - 83	2.5e-34	Serine hydroxymethyltransferase

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: OG0001957)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G26780 AT5G26780 AT5G26780 AT5G26780
fragaria_vesca	FvH4_5g34000 FvH4_5g34000 FvH4_5g34000
malus_domestica	MD08G1206800.v1.1 MD15G1390500.v1.1
prunus_persica	Prupe.1G539400_v2.0.a1 Prupe.1G539400_v2.0.a1 Prupe.1G539400_v2.0.a1 Prupe.1G539400_v2.0.a1
pyrus_communis	pycom08g17860
rosa_chinensis	RchiOBHm_Chr5g0052761 RchiOBHm_Chr7g0233441 RchiOBHm_Chr7g0235741
rosa_laevigata	RLG00000001270 RLG00000013832 RLG00000035486
rosa_multiflora	Rmu_sc0000029.1_g000053 Rmu_sc0006510.1_g000006
rosa_roxburghii	Rroxscaffold_3G00227300 Rroxscaffold_3G00241170
rosa_rugosa	Rorug07G0280700
rosa_samantha	Rh1CG020600 Rh1CG022300 Rh2AG156000 Rh2BG162300 Rh2BG221600 Rh2DG161400 Rh4DG362000 Rh5BG352800 Rh5CG247000 Rh5CG419500 Rh5DG369100 Rh7AG154700 Rh7AG436500 Rh7AG488000 Rh7BG409600 Rh7CG456400 Rh7DG425700
rosa_wichuraiana	Rw0G022490 Rw7G035990 Rw7G036020

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	156
AcsI	RAATTY	2 cut(s)	161, 235
AgsI	TTSAA	1 cut(s)	124
AjnI	CCWGG	1 cut(s)	43
AjuI	GAANNNNNNNTTGG	2 cut(s)	126, 158
AluBI	AGCT	2 cut(s)	128, 174
AluI	AGCT	2 cut(s)	128, 174
Alw26I	GTCTC	1 cut(s)	205
AoxI	GGCC	1 cut(s)	105
ApoI	RAATTY	2 cut(s)	161, 235
AseI	ATTAAT	1 cut(s)	27
AspS9I	GGNCC	1 cut(s)	59
AvaII	GGWCC	1 cut(s)	59
BbsI	GAAGAC	1 cut(s)	26
BciT130I	CCWGG	1 cut(s)	45
BcoDI	GTCTC	1 cut(s)	205
BfaI	CTAG	2 cut(s)	179, 252
Bme1390I	CCNGG	1 cut(s)	45
Bme18I	GGWCC	1 cut(s)	59
BmgT120I	GGNCC	1 cut(s)	59
BmrFI	CCNGG	1 cut(s)	45
BpiI	GAAGAC	1 cut(s)	26
BpmI	CTGGAG	1 cut(s)	99
BpuEI	CTTGAG	1 cut(s)	83
BsaJI	CCNNGG	1 cut(s)	52
BsaWI	WCCGGW	1 cut(s)	203
BseBI	CCWGG	1 cut(s)	45
BseDI	CCNNGG	1 cut(s)	52
BseMII	CTCAG	1 cut(s)	160
BshFI	GGCC	1 cut(s)	107
BsiSI	CCGG	1 cut(s)	204
BslFI	GGGAC	1 cut(s)	257
BsmAI	GTCTC	1 cut(s)	205
BsmFI	GGGAC	1 cut(s)	257
BsnI	GGCC	1 cut(s)	107
Bsp143I	GATC	1 cut(s)	193
BspACI	CCGC	1 cut(s)	156
BspANI	GGCC	1 cut(s)	107
BspCNI	CTCAG	1 cut(s)	159
BssECI	CCNNGG	1 cut(s)	52
BssMI	GATC	1 cut(s)	193
BssT1I	CCWWGG	1 cut(s)	52
Bst2UI	CCWGG	1 cut(s)	45
BstC8I	GCNNGC	2 cut(s)	105, 176
BstDEI	CTNAG	1 cut(s)	146
BstKTI	GATC	1 cut(s)	196
BstMAI	GTCTC	1 cut(s)	205
BstMBI	GATC	1 cut(s)	193
BstMWI	GCNNNNNNNGC	1 cut(s)	164
BstNI	CCWGG	1 cut(s)	45
BstSCI	CCNGG	1 cut(s)	43
BstV2I	GAAGAC	1 cut(s)	26
BsuRI	GGCC	1 cut(s)	107
Cac8I	GCNNGC	2 cut(s)	105, 176
Cfr13I	GGNCC	1 cut(s)	59
CviJI	RGCY	5 cut(s)	35, 107, 128, 174, 189
CviKI_1	RGCY	5 cut(s)	35, 107, 128, 174, 189
DdeI	CTNAG	1 cut(s)	146
DpnI	GATC	1 cut(s)	195
DpnII	GATC	1 cut(s)	193
Eco130I	CCWWGG	1 cut(s)	52
Eco47I	GGWCC	1 cut(s)	59
EcoRII	CCWGG	1 cut(s)	43
EcoT14I	CCWWGG	1 cut(s)	52
ErhI	CCWWGG	1 cut(s)	52
FaiI	YATR	6 cut(s)	7, 11, 17, 77, 192, 258
FaqI	GGGAC	1 cut(s)	257
FspBI	CTAG	2 cut(s)	179, 252
GsuI	CTGGAG	1 cut(s)	99
HaeIII	GGCC	1 cut(s)	107
HapII	CCGG	1 cut(s)	204
HindIII	AAGCTT	1 cut(s)	126
HinfI	GANTC	2 cut(s)	48, 265
HpaII	CCGG	1 cut(s)	204
Hpy166II	GTNNAC	1 cut(s)	62
Hpy188III	TCNNGA	2 cut(s)	116, 262
Hpy8I	GTNNAC	1 cut(s)	62
HpyAV	CCTTC	1 cut(s)	178
HpyCH4V	TGCA	1 cut(s)	95
HpyF10VI	GCNNNNNNNGC	1 cut(s)	164
HpyF3I	CTNAG	1 cut(s)	146
Kzo9I	GATC	1 cut(s)	193
LpnPI	CCDG	7 cut(s)	17, 30, 57, 66, 89, 129, 217
MaeI	CTAG	2 cut(s)	179, 252
MalI	GATC	1 cut(s)	195
MboI	GATC	1 cut(s)	193
MboII	GAAGA	1 cut(s)	31
MluCI	AATT	4 cut(s)	24, 151, 161, 235
MlyI	GAGTC	1 cut(s)	42
MnlI	CCTC	1 cut(s)	234
MseI	TTAA	1 cut(s)	27
MspI	CCGG	1 cut(s)	204
MspR9I	CCNGG	1 cut(s)	45
MvaI	CCWGG	1 cut(s)	45
MwoI	GCNNNNNNNGC	1 cut(s)	164
NdeII	GATC	1 cut(s)	193
PfoI	TCCNGGA	1 cut(s)	43
PleI	GAGTC	1 cut(s)	42
PpsI	GAGTC	1 cut(s)	42
PshBI	ATTAAT	1 cut(s)	27
Psp6I	CCWGG	1 cut(s)	43
PspGI	CCWGG	1 cut(s)	43
PspPI	GGNCC	1 cut(s)	59
SaqAI	TTAA	1 cut(s)	27
Sau3AI	GATC	1 cut(s)	193
Sau96I	GGNCC	1 cut(s)	59
SchI	GAGTC	1 cut(s)	42
ScrFI	CCNGG	1 cut(s)	45
SetI	ASST	4 cut(s)	58, 130, 176, 257
SinI	GGWCC	1 cut(s)	59
SmlI	CTYRAG	2 cut(s)	98, 262
SmoI	CTYRAG	2 cut(s)	98, 262
Sse9I	AATT	4 cut(s)	24, 151, 161, 235
SsiI	CCGC	1 cut(s)	156
SspMI	CTAG	2 cut(s)	179, 252
StyD4I	CCNGG	1 cut(s)	43
StyI	CCWWGG	1 cut(s)	52
TaqI	TCGA	1 cut(s)	239
TasI	AATT	4 cut(s)	24, 151, 161, 235
Tru1I	TTAA	1 cut(s)	27
Tru9I	TTAA	1 cut(s)	27
TspDTI	ATGAA	1 cut(s)	32
VpaK11BI	GGWCC	1 cut(s)	59
VspI	ATTAAT	1 cut(s)	27
XapI	RAATTY	2 cut(s)	161, 235
XspI	CTAG	2 cut(s)	179, 252

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