Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0001957

Physical Location & Seq

Genomic Coordinates Reverse (-)

25976898 .. 25978750

Gene Structure 1853 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG247000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 258 bp

ATGTTGAAGAAAAGTGCCACACTATTCAGACCCAAATTAATAGTTGCTGGTGCCAGTGCTTGTGCACGCTTGTACGACTATGCACGCATACGCAAGGTCTGTGATAAGCAGAAAGCTATTTTGTTAGCTGATATGGCACACATCAGTGGATTGGTTGCGGCAGGGGGTCATAGCCCCACGAGGCCACAACTCCAGAGTTCAAAGCTTACCAAGAGCAAGTTCTCAGTAATTCCGCAAAATTTGCAGAGAGCTTGCTAG

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

85

Amino Acids

9.24

Weight (kDa)

10.42

Isoelectric Point (pI)

61.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SHMT	PF00464	2 - 58	1.7e-22	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

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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)
AccB1I	GGYRCC	1 cut(s)	50
AciI	CCGC	2 cut(s)	158, 233
AcsI	RAATTY	1 cut(s)	238
AfaI	GTAC	1 cut(s)	74
AgsI	TTSAA	2 cut(s)	7, 201
AjuI	GAANNNNNNNTTGG	2 cut(s)	203, 235
AleI	CACNNNNGTG	1 cut(s)	144
AluBI	AGCT	4 cut(s)	116, 128, 205, 251
AluI	AGCT	4 cut(s)	116, 128, 205, 251
Alw21I	GWGCWC	1 cut(s)	67
Alw44I	GTGCAC	1 cut(s)	63
AoxI	GGCC	1 cut(s)	182
ApaLI	GTGCAC	1 cut(s)	63
ApoI	RAATTY	1 cut(s)	238
AseI	ATTAAT	1 cut(s)	38
BaeGI	GKGCMC	1 cut(s)	67
BanI	GGYRCC	1 cut(s)	50
BauI	CACGAG	1 cut(s)	178
Bbv12I	GWGCWC	1 cut(s)	67
BfaI	CTAG	1 cut(s)	256
BisI	GCNGC	1 cut(s)	159
BlsI	GCNGC	1 cut(s)	160
BmiI	GGNNCC	1 cut(s)	52
BpmI	CTGGAG	1 cut(s)	176
Bse1I	ACTGG	1 cut(s)	54
BseMII	CTCAG	1 cut(s)	237
BseNI	ACTGG	1 cut(s)	54
BseSI	GKGCMC	1 cut(s)	67
BshFI	GGCC	1 cut(s)	184
BshNI	GGYRCC	1 cut(s)	50
BsiHKAI	GWGCWC	1 cut(s)	67
BsnI	GGCC	1 cut(s)	184
Bsp1286I	GDGCHC	1 cut(s)	67
BspACI	CCGC	2 cut(s)	158, 233
BspANI	GGCC	1 cut(s)	184
BspCNI	CTCAG	1 cut(s)	236
BspLI	GGNNCC	1 cut(s)	52
BspT107I	GGYRCC	1 cut(s)	50
BsrI	ACTGG	1 cut(s)	54
BssSI	CACGAG	1 cut(s)	178
Bst2BI	CACGAG	1 cut(s)	178
BstAPI	GCANNNNNTGC	1 cut(s)	241
BstC8I	GCNNGC	3 cut(s)	67, 85, 253
BstDEI	CTNAG	1 cut(s)	223
BstMWI	GCNNNNNNNGC	2 cut(s)	134, 241
BstSLI	GKGCMC	1 cut(s)	67
BsuRI	GGCC	1 cut(s)	184
BtsIMutI	CAGTG	2 cut(s)	61, 151
Cac8I	GCNNGC	3 cut(s)	67, 85, 253
Csp6I	GTAC	1 cut(s)	73
CviJI	RGCY	6 cut(s)	116, 128, 174, 184, 205, 251
CviKI_1	RGCY	6 cut(s)	116, 128, 174, 184, 205, 251
CviQI	GTAC	1 cut(s)	73
DdeI	CTNAG	1 cut(s)	223
FaiI	YATR	4 cut(s)	81, 89, 134, 171
Fnu4HI	GCNGC	1 cut(s)	159
Fsp4HI	GCNGC	1 cut(s)	159
FspBI	CTAG	1 cut(s)	256
GluI	GCNGC	1 cut(s)	159
GsuI	CTGGAG	1 cut(s)	176
HaeIII	GGCC	1 cut(s)	184
HindIII	AAGCTT	1 cut(s)	203
Hpy166II	GTNNAC	1 cut(s)	65
Hpy188I	TCNGA	1 cut(s)	29
Hpy188III	TCNNGA	1 cut(s)	193
Hpy8I	GTNNAC	1 cut(s)	65
HpyCH4V	TGCA	3 cut(s)	65, 83, 244
HpyF10VI	GCNNNNNNNGC	2 cut(s)	134, 241
HpyF3I	CTNAG	1 cut(s)	223
LpnPI	CCDG	4 cut(s)	33, 67, 147, 206
MaeI	CTAG	1 cut(s)	256
MboII	GAAGA	1 cut(s)	19
MhlI	GDGCHC	1 cut(s)	67
MluCI	AATT	3 cut(s)	35, 228, 238
MnlI	CCTC	1 cut(s)	174
MseI	TTAA	1 cut(s)	38
MslI	CAYNNNNRTG	1 cut(s)	144
MwoI	GCNNNNNNNGC	2 cut(s)	134, 241
NlaIV	GGNNCC	1 cut(s)	52
OliI	CACNNNNGTG	1 cut(s)	144
PkrI	GCNGC	1 cut(s)	160
PshBI	ATTAAT	1 cut(s)	38
PspN4I	GGNNCC	1 cut(s)	52
RsaI	GTAC	1 cut(s)	74
RsaNI	GTAC	1 cut(s)	73
RseI	CAYNNNNRTG	1 cut(s)	144
SaqAI	TTAA	1 cut(s)	38
SatI	GCNGC	1 cut(s)	159
SduI	GDGCHC	1 cut(s)	67
SetI	ASST	5 cut(s)	99, 118, 130, 207, 253
SmiMI	CAYNNNNRTG	1 cut(s)	144
Sse9I	AATT	3 cut(s)	35, 228, 238
SsiI	CCGC	2 cut(s)	158, 233
SspMI	CTAG	1 cut(s)	256
TasI	AATT	3 cut(s)	35, 228, 238
TauI	GCSGC	1 cut(s)	161
Tru1I	TTAA	1 cut(s)	38
Tru9I	TTAA	1 cut(s)	38
TscAI	CASTG	2 cut(s)	61, 151
TspRI	CASTG	2 cut(s)	61, 151
VneI	GTGCAC	1 cut(s)	63
VspI	ATTAAT	1 cut(s)	38
XapI	RAATTY	1 cut(s)	238
XspI	CTAG	1 cut(s)	256

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