Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0001957

Physical Location & Seq

Genomic Coordinates Forward (+)

57544156 .. 57546031

Gene Structure 1876 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG419500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 333 bp

ATGATCTCTAACGAGAGTTGCCAGACAGGCATCTCGAACTGTCGCAAGCGACCTTCACCTCCTTTCGCTGCCGCAAGGACCGAGTGCTCCGCCTCAACCTCCACCTCTTGGAGGACTGAATCACCACCACTGTGGACGGTTATGATGTTGAAGAAAAGCACCACACTATTTAGACCAAGATTAATAGTTGCTGGTGCCAGTGCTTGTGCACGCTTGTACTACTATGCACGCATACGCAAGGTCAGTGATAAGCAGAAAGCTGTTTTGTTAGCTGATATGGCACACATCAGTGGATTGGTTGCGGCAGGTGTTATTCCATCTCCTTTTGAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001505 GO:0003674 GO:0003824 GO:0004372 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005740 GO:0005743 GO:0005746 GO:0005747 GO:0005829 GO:0006082 GO:0006520 GO:0006544 GO:0006563 GO:0006807 GO:0008150 GO:0008152 GO:0008270 GO:0009069 GO:0009987 GO:0016020 GO:0016740 GO:0016741 GO:0016742 GO:0017144 GO:0019752 GO:0019866 GO:0030964 GO:0031090 GO:0031966 GO:0031967 GO:0031975 GO:0032991 GO:0042133 GO:0043167 GO:0043169 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0044237 GO:0044238 GO:0044281 GO:0044422 GO:0044424 GO:0044425 GO:0044429 GO:0044444 GO:0044446 GO:0044455 GO:0044464 GO:0045271 GO:0046872 GO:0046914 GO:0050897 GO:0065007 GO:0065008 GO:0070469 GO:0071704 GO:0098796 GO:0098798 GO:0098800 GO:0098803 GO:1901564 GO:1901605 GO:1902494 GO:1990204

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

110

Amino Acids

12.01

Weight (kDa)

9.96

Isoelectric Point (pI)

60.17

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SHMT	PF00464	49 - 110	4.6e-23	Serine hydroxymethyltransferase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

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)
AarI	CACCTGC	1 cut(s)	296
Acc36I	ACCTGC	1 cut(s)	296
AccB1I	GGYRCC	1 cut(s)	194
AccB7I	CCANNNNNTGG	1 cut(s)	108
AciI	CCGC	3 cut(s)	72, 90, 302
AfaI	GTAC	1 cut(s)	218
AfiI	CCNNNNNNNGG	2 cut(s)	108, 111
AgsI	TTSAA	1 cut(s)	151
AleI	CACNNNNGTG	2 cut(s)	130, 288
AluBI	AGCT	2 cut(s)	260, 272
AluI	AGCT	2 cut(s)	260, 272
Alw21I	GWGCWC	2 cut(s)	89, 211
Alw44I	GTGCAC	1 cut(s)	207
ApaLI	GTGCAC	1 cut(s)	207
ApeKI	GCWGC	1 cut(s)	68
AseI	ATTAAT	1 cut(s)	182
AspS9I	GGNCC	1 cut(s)	78
AsuHPI	GGTGA	2 cut(s)	48, 114
AvaII	GGWCC	1 cut(s)	78
BaeGI	GKGCMC	1 cut(s)	211
BanI	GGYRCC	1 cut(s)	194
Bbv12I	GWGCWC	2 cut(s)	89, 211
BbvI	GCAGC	1 cut(s)	55
BccI	CCATC	1 cut(s)	325
BfuAI	ACCTGC	1 cut(s)	296
BglI	GCCNNNNNGGC	1 cut(s)	27
BisI	GCNGC	3 cut(s)	69, 72, 303
BlsI	GCNGC	3 cut(s)	70, 73, 304
Bme18I	GGWCC	1 cut(s)	78
BmgT120I	GGNCC	1 cut(s)	78
BmiI	GGNNCC	1 cut(s)	196
BmsI	GCATC	1 cut(s)	39
Bsc4I	CCNNNNNNNGG	2 cut(s)	108, 111
Bse1I	ACTGG	1 cut(s)	198
BseLI	CCNNNNNNNGG	2 cut(s)	108, 111
BseNI	ACTGG	1 cut(s)	198
BseSI	GKGCMC	1 cut(s)	211
BseXI	GCAGC	1 cut(s)	55
BshNI	GGYRCC	1 cut(s)	194
BsiHKAI	GWGCWC	2 cut(s)	89, 211
BslI	CCNNNNNNNGG	2 cut(s)	108, 111
Bsp1286I	GDGCHC	2 cut(s)	89, 211
Bsp143I	GATC	1 cut(s)	3
BspACI	CCGC	3 cut(s)	72, 90, 302
BspLI	GGNNCC	1 cut(s)	196
BspMI	ACCTGC	1 cut(s)	296
BspT107I	GGYRCC	1 cut(s)	194
BsrI	ACTGG	1 cut(s)	198
BssMI	GATC	1 cut(s)	3
Bst4CI	ACNGT	3 cut(s)	41, 132, 139
BstC8I	GCNNGC	3 cut(s)	47, 211, 229
BstENI	CCTNNNNNAGG	1 cut(s)	109
BstKTI	GATC	1 cut(s)	6
BstMBI	GATC	1 cut(s)	3
BstMWI	GCNNNNNNNGC	2 cut(s)	27, 278
BstSLI	GKGCMC	1 cut(s)	211
BstV1I	GCAGC	1 cut(s)	55
BstXI	CCANNNNNNTGG	1 cut(s)	132
BtsIMutI	CAGTG	4 cut(s)	128, 205, 250, 295
BveI	ACCTGC	1 cut(s)	296
Cac8I	GCNNGC	3 cut(s)	47, 211, 229
Cfr13I	GGNCC	1 cut(s)	78
Csp6I	GTAC	1 cut(s)	217
CviJI	RGCY	2 cut(s)	260, 272
CviKI_1	RGCY	2 cut(s)	260, 272
CviQI	GTAC	1 cut(s)	217
DpnI	GATC	1 cut(s)	5
DpnII	GATC	1 cut(s)	3
EciI	GGCGGA	1 cut(s)	79
Eco47I	GGWCC	1 cut(s)	78
EcoNI	CCTNNNNNAGG	1 cut(s)	109
FaiI	YATR	4 cut(s)	143, 225, 233, 278
Fnu4HI	GCNGC	3 cut(s)	69, 72, 303
Fsp4HI	GCNGC	3 cut(s)	69, 72, 303
GluI	GCNGC	3 cut(s)	69, 72, 303
HinfI	GANTC	1 cut(s)	119
HphI	GGTGA	2 cut(s)	48, 114
Hpy166II	GTNNAC	2 cut(s)	135, 209
Hpy188III	TCNNGA	1 cut(s)	34
Hpy8I	GTNNAC	2 cut(s)	135, 209
HpyAV	CCTTC	1 cut(s)	63
HpyCH4III	ACNGT	3 cut(s)	41, 132, 139
HpyCH4V	TGCA	2 cut(s)	209, 227
HpyF10VI	GCNNNNNNNGC	2 cut(s)	27, 278
Kzo9I	GATC	1 cut(s)	3
LmnI	GCTCC	1 cut(s)	92
LpnPI	CCDG	5 cut(s)	12, 35, 177, 211, 291
Lsp1109I	GCAGC	1 cut(s)	55
LweI	GCATC	1 cut(s)	39
MalI	GATC	1 cut(s)	5
MboI	GATC	1 cut(s)	3
MboII	GAAGA	1 cut(s)	163
MhlI	GDGCHC	2 cut(s)	89, 211
MnlI	CCTC	5 cut(s)	69, 103, 105, 109, 115
MseI	TTAA	1 cut(s)	182
MslI	CAYNNNNRTG	2 cut(s)	130, 288
MwoI	GCNNNNNNNGC	2 cut(s)	27, 278
NdeII	GATC	1 cut(s)	3
NlaIV	GGNNCC	1 cut(s)	196
OliI	CACNNNNGTG	2 cut(s)	130, 288
PaqCI	CACCTGC	1 cut(s)	296
PfeI	GAWTC	1 cut(s)	119
PflMI	CCANNNNNTGG	1 cut(s)	108
PkrI	GCNGC	3 cut(s)	70, 73, 304
PshBI	ATTAAT	1 cut(s)	182
PspN4I	GGNNCC	1 cut(s)	196
PspPI	GGNCC	1 cut(s)	78
RsaI	GTAC	1 cut(s)	218
RsaNI	GTAC	1 cut(s)	217
RseI	CAYNNNNRTG	2 cut(s)	130, 288
SaqAI	TTAA	1 cut(s)	182
SatI	GCNGC	3 cut(s)	69, 72, 303
Sau3AI	GATC	1 cut(s)	3
Sau96I	GGNCC	1 cut(s)	78
SduI	GDGCHC	2 cut(s)	89, 211
SetI	ASST	8 cut(s)	55, 61, 101, 107, 243, 262, 274, 310
SfaNI	GCATC	1 cut(s)	39
SinI	GGWCC	1 cut(s)	78
SmiMI	CAYNNNNRTG	2 cut(s)	130, 288
SsiI	CCGC	3 cut(s)	72, 90, 302
TaaI	ACNGT	3 cut(s)	41, 132, 139
TaqI	TCGA	1 cut(s)	35
TaqII	GACCGA	1 cut(s)	95
TatI	WGTACW	1 cut(s)	216
TauI	GCSGC	2 cut(s)	74, 305
TfiI	GAWTC	1 cut(s)	119
Tru1I	TTAA	1 cut(s)	182
Tru9I	TTAA	1 cut(s)	182
TscAI	CASTG	4 cut(s)	135, 205, 250, 295
TseI	GCWGC	1 cut(s)	68
TspRI	CASTG	4 cut(s)	135, 205, 250, 295
Van91I	CCANNNNNTGG	1 cut(s)	108
VneI	GTGCAC	1 cut(s)	207
VpaK11BI	GGWCC	1 cut(s)	78
VspI	ATTAAT	1 cut(s)	182
XagI	CCTNNNNNAGG	1 cut(s)	109

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