Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7A

Orthogroup ID

OG0001957

Physical Location & Seq

Genomic Coordinates Reverse (-)

68825964 .. 68831066

Gene Structure 5103 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7AG488000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 645 bp

ATGATCTCTAACGAGAGTTACCAGACAGGCATCTCGAACTGTCGCAAGCGACCTTCGCCGCCTTTCGCTGCCGCAAGGACCGCGTGCTCCGCCTCAACCTCCACCTCTTGGAGGACTGAATCGCCACCACCGTGGACGGTTATGATGATATTCTGCATGCTTCTCCGGAGAAGGTACAGCGCCCTGCTCTATTCTTTGAGGGACAGTTTGCCTAAATATTTGTGCTTTCAAGTCCCTGCTTTTGTAAGGAATCGCCACCATGTGACATTGAAGAAAAGTGCCACACTATTCAGACCCAAATTAATAGTTGCTGGTGCCAGTGCTTGTGCACGCTTGTACGACTATGCACGCATACGCAAGGTCTGTGATAAGCAGAAAGCTATTTTGTTAGCTGATATGGCACACATCAGTGGATTGGTTACGGCAGGGGGACGTCATAGCCCCACGAGGCCACAGCTCCAGAGTTCAAAGCCTTACCAAGAGCAAGTTCTCAGTAATTACGCAAAATTTGCAGAGAGCTTGCTAGAGAAGGGCTATGATCTTGTCTCTGGTGGAACTGACAACCATTTAGTGTTGGTAAATTTGAGGGACAAGTGGGCGGTTGAGGAAATGTTAATTTATATGGCTCGCAACCGATCAAACTAA

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

214

Amino Acids

24.18

Weight (kDa)

9.96

Isoelectric Point (pI)

63.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SHMT	PF00464	89 - 149	9e-22	Serine hydroxymethyltransferase
SHMT	PF00464	156 - 198	4e-12	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)
AatII	GACGTC	1 cut(s)	436
AccB1I	GGYRCC	1 cut(s)	314
AccB7I	CCANNNNNTGG	1 cut(s)	108
AccII	CGCG	1 cut(s)	83
AccIII	TCCGGA	1 cut(s)	165
AciI	CCGC	5 cut(s)	59, 72, 81, 90, 599
AcsI	RAATTY	2 cut(s)	506, 580
AcyI	GRCGYC	1 cut(s)	433
AdeI	CACNNNGTG	1 cut(s)	262
AfaI	GTAC	2 cut(s)	176, 338
AfiI	CCNNNNNNNGG	2 cut(s)	108, 111
AgsI	TTSAA	3 cut(s)	230, 271, 468
AjuI	GAANNNNNNNTTGG	2 cut(s)	471, 503
AleI	CACNNNNGTG	2 cut(s)	130, 408
AluBI	AGCT	4 cut(s)	380, 392, 457, 519
AluI	AGCT	4 cut(s)	380, 392, 457, 519
Alw21I	GWGCWC	2 cut(s)	89, 331
Alw26I	GTCTC	1 cut(s)	550
Alw44I	GTGCAC	1 cut(s)	327
Aor13HI	TCCGGA	1 cut(s)	165
AoxI	GGCC	1 cut(s)	449
ApaLI	GTGCAC	1 cut(s)	327
ApeKI	GCWGC	1 cut(s)	68
ApoI	RAATTY	2 cut(s)	506, 580
AseI	ATTAAT	1 cut(s)	302
AspLEI	GCGC	1 cut(s)	182
AspS9I	GGNCC	1 cut(s)	78
AvaII	GGWCC	1 cut(s)	78
BaeGI	GKGCMC	1 cut(s)	331
BanI	GGYRCC	1 cut(s)	314
BauI	CACGAG	1 cut(s)	445
Bbv12I	GWGCWC	2 cut(s)	89, 331
BbvI	GCAGC	1 cut(s)	55
BceAI	ACGGC	1 cut(s)	438
BcoDI	GTCTC	1 cut(s)	550
BfaI	CTAG	1 cut(s)	524
BfoI	RGCGCY	1 cut(s)	183
BisI	GCNGC	3 cut(s)	59, 69, 72
BlsI	GCNGC	3 cut(s)	60, 70, 73
Bme18I	GGWCC	1 cut(s)	78
BmgT120I	GGNCC	1 cut(s)	78
BmiI	GGNNCC	1 cut(s)	316
BmsI	GCATC	1 cut(s)	39
BpmI	CTGGAG	1 cut(s)	443
BsaHI	GRCGYC	1 cut(s)	433
BsaJI	CCNNGG	1 cut(s)	131
BsaWI	WCCGGW	1 cut(s)	165
Bsc4I	CCNNNNNNNGG	2 cut(s)	108, 111
Bse1I	ACTGG	1 cut(s)	318
BseAI	TCCGGA	1 cut(s)	165
BseDI	CCNNGG	1 cut(s)	131
BseLI	CCNNNNNNNGG	2 cut(s)	108, 111
BseMII	CTCAG	1 cut(s)	505
BseNI	ACTGG	1 cut(s)	318
BseSI	GKGCMC	1 cut(s)	331
BseXI	GCAGC	1 cut(s)	55
Bsh1236I	CGCG	1 cut(s)	83
BshFI	GGCC	1 cut(s)	451
BshNI	GGYRCC	1 cut(s)	314
BsiHKAI	GWGCWC	2 cut(s)	89, 331
BsiSI	CCGG	1 cut(s)	166
BslFI	GGGAC	4 cut(s)	215, 218, 444, 602
BslI	CCNNNNNNNGG	2 cut(s)	108, 111
BsmAI	GTCTC	1 cut(s)	550
BsmFI	GGGAC	4 cut(s)	215, 218, 444, 602
BsnI	GGCC	1 cut(s)	451
Bsp1286I	GDGCHC	2 cut(s)	89, 331
Bsp13I	TCCGGA	1 cut(s)	165
Bsp143I	GATC	3 cut(s)	3, 538, 635
BspACI	CCGC	5 cut(s)	59, 72, 81, 90, 599
BspANI	GGCC	1 cut(s)	451
BspCNI	CTCAG	1 cut(s)	504
BspEI	TCCGGA	1 cut(s)	165
BspFNI	CGCG	1 cut(s)	83
BspLI	GGNNCC	1 cut(s)	316
BspT107I	GGYRCC	1 cut(s)	314
BsrI	ACTGG	1 cut(s)	318
BssECI	CCNNGG	1 cut(s)	131
BssMI	GATC	3 cut(s)	3, 538, 635
BssNI	GRCGYC	1 cut(s)	433
BssSI	CACGAG	1 cut(s)	445
Bst2BI	CACGAG	1 cut(s)	445
Bst4CI	ACNGT	4 cut(s)	41, 132, 139, 206
BstACI	GRCGYC	1 cut(s)	433
BstAPI	GCANNNNNTGC	1 cut(s)	509
BstC8I	GCNNGC	7 cut(s)	47, 85, 158, 331, 349, 521, 628
BstDEI	CTNAG	1 cut(s)	491
BstDSI	CCRYGG	1 cut(s)	131
BstENI	CCTNNNNNAGG	1 cut(s)	109
BstFNI	CGCG	1 cut(s)	83
BstH2I	RGCGCY	1 cut(s)	183
BstHHI	GCGC	1 cut(s)	182
BstKTI	GATC	3 cut(s)	6, 541, 638
BstMAI	GTCTC	1 cut(s)	550
BstMBI	GATC	3 cut(s)	3, 538, 635
BstMWI	GCNNNNNNNGC	5 cut(s)	55, 80, 89, 398, 509
BstNSI	RCATGY	1 cut(s)	160
BstSLI	GKGCMC	1 cut(s)	331
BstUI	CGCG	1 cut(s)	83
BstV1I	GCAGC	1 cut(s)	55
BstXI	CCANNNNNNTGG	1 cut(s)	132
BsuRI	GGCC	1 cut(s)	451
BtgI	CCRYGG	1 cut(s)	131
BtsIMutI	CAGTG	2 cut(s)	325, 415
Cac8I	GCNNGC	7 cut(s)	47, 85, 158, 331, 349, 521, 628
CfoI	GCGC	1 cut(s)	182
Cfr13I	GGNCC	1 cut(s)	78
Csp6I	GTAC	2 cut(s)	175, 337
CviAII	CATG	2 cut(s)	157, 260
CviJI	RGCY	9 cut(s)	380, 392, 441, 451, 457, 472, 519, 534, 626
CviKI_1	RGCY	9 cut(s)	380, 392, 441, 451, 457, 472, 519, 534, 626
CviQI	GTAC	2 cut(s)	175, 337
DdeI	CTNAG	1 cut(s)	491
DpnI	GATC	3 cut(s)	5, 540, 637
DpnII	GATC	3 cut(s)	3, 538, 635
DraIII	CACNNNGTG	1 cut(s)	262
EciI	GGCGGA	1 cut(s)	79
Eco47I	GGWCC	1 cut(s)	78
EcoNI	CCTNNNNNAGG	1 cut(s)	109
FaeI	CATG	2 cut(s)	160, 263
FaqI	GGGAC	4 cut(s)	215, 218, 444, 602
FatI	CATG	2 cut(s)	156, 259
Fnu4HI	GCNGC	3 cut(s)	59, 69, 72
Fsp4HI	GCNGC	3 cut(s)	59, 69, 72
FspBI	CTAG	1 cut(s)	524
GlaI	GCGC	1 cut(s)	181
GluI	GCNGC	3 cut(s)	59, 69, 72
GsuI	CTGGAG	1 cut(s)	443
HaeII	RGCGCY	1 cut(s)	183
HaeIII	GGCC	1 cut(s)	451
HapII	CCGG	1 cut(s)	166
HhaI	GCGC	1 cut(s)	182
Hin1I	GRCGYC	1 cut(s)	433
Hin1II	CATG	2 cut(s)	160, 263
Hin6I	GCGC	1 cut(s)	180
HinP1I	GCGC	1 cut(s)	180
HinfI	GANTC	2 cut(s)	119, 250
HpaII	CCGG	1 cut(s)	166
Hpy166II	GTNNAC	2 cut(s)	135, 329
Hpy188I	TCNGA	1 cut(s)	293
Hpy188III	TCNNGA	3 cut(s)	34, 166, 460
Hpy8I	GTNNAC	2 cut(s)	135, 329
HpyAV	CCTTC	3 cut(s)	63, 165, 523
HpyCH4III	ACNGT	4 cut(s)	41, 132, 139, 206
HpyCH4IV	ACGT	1 cut(s)	433
HpyCH4V	TGCA	4 cut(s)	156, 329, 347, 512
HpyF10VI	GCNNNNNNNGC	5 cut(s)	55, 80, 89, 398, 509
HpyF3I	CTNAG	1 cut(s)	491
HpySE526I	ACGT	1 cut(s)	433
Hsp92I	GRCGYC	1 cut(s)	433
Hsp92II	CATG	2 cut(s)	160, 263
HspAI	GCGC	1 cut(s)	180
Kpn2I	TCCGGA	1 cut(s)	165
Kzo9I	GATC	3 cut(s)	3, 538, 635
LmnI	GCTCC	2 cut(s)	92, 462
Lsp1109I	GCAGC	1 cut(s)	55
LweI	GCATC	1 cut(s)	39
MaeI	CTAG	1 cut(s)	524
MaeII	ACGT	1 cut(s)	433
MaeIII	GTNAC	3 cut(s)	17, 262, 418
MalI	GATC	3 cut(s)	5, 540, 637
MboI	GATC	3 cut(s)	3, 538, 635
MboII	GAAGA	1 cut(s)	283
MhlI	GDGCHC	2 cut(s)	89, 331
MluCI	AATT	5 cut(s)	299, 496, 506, 580, 615
MnlI	CCTC	8 cut(s)	103, 105, 109, 115, 192, 441, 579, 598
MroI	TCCGGA	1 cut(s)	165
MseI	TTAA	2 cut(s)	302, 614
MslI	CAYNNNNRTG	2 cut(s)	130, 408
MspI	CCGG	1 cut(s)	166
MvnI	CGCG	1 cut(s)	83
MwoI	GCNNNNNNNGC	5 cut(s)	55, 80, 89, 398, 509
NdeII	GATC	3 cut(s)	3, 538, 635
NlaIII	CATG	2 cut(s)	160, 263
NlaIV	GGNNCC	1 cut(s)	316
NmuCI	GTSAC	1 cut(s)	262
NspI	RCATGY	1 cut(s)	160
OliI	CACNNNNGTG	2 cut(s)	130, 408
PaeI	GCATGC	1 cut(s)	160
PcsI	WCGNNNNNNNCGW	1 cut(s)	128
PfeI	GAWTC	2 cut(s)	119, 250
PflMI	CCANNNNNTGG	1 cut(s)	108
PkrI	GCNGC	3 cut(s)	60, 70, 73
PshBI	ATTAAT	1 cut(s)	302
PspN4I	GGNNCC	1 cut(s)	316
PspPI	GGNCC	1 cut(s)	78
RsaI	GTAC	2 cut(s)	176, 338
RsaNI	GTAC	2 cut(s)	175, 337
RseI	CAYNNNNRTG	2 cut(s)	130, 408
SaqAI	TTAA	2 cut(s)	302, 614
SatI	GCNGC	3 cut(s)	59, 69, 72
Sau3AI	GATC	3 cut(s)	3, 538, 635
Sau96I	GGNCC	1 cut(s)	78
SduI	GDGCHC	2 cut(s)	89, 331
SfaNI	GCATC	1 cut(s)	39
SinI	GGWCC	1 cut(s)	78
SmiMI	CAYNNNNRTG	2 cut(s)	130, 408
SphI	GCATGC	1 cut(s)	160
Sse9I	AATT	5 cut(s)	299, 496, 506, 580, 615
SsiI	CCGC	5 cut(s)	59, 72, 81, 90, 599
SspI	AATATT	1 cut(s)	218
SspMI	CTAG	1 cut(s)	524
TaaI	ACNGT	4 cut(s)	41, 132, 139, 206
TaiI	ACGT	1 cut(s)	436
TaqI	TCGA	1 cut(s)	35
TasI	AATT	5 cut(s)	299, 496, 506, 580, 615
TauI	GCSGC	2 cut(s)	61, 74
TfiI	GAWTC	2 cut(s)	119, 250
Tru1I	TTAA	2 cut(s)	302, 614
Tru9I	TTAA	2 cut(s)	302, 614
TscAI	CASTG	2 cut(s)	325, 415
TseFI	GTSAC	1 cut(s)	262
TseI	GCWGC	1 cut(s)	68
Tsp45I	GTSAC	1 cut(s)	262
TspRI	CASTG	2 cut(s)	325, 415
Van91I	CCANNNNNTGG	1 cut(s)	108
VneI	GTGCAC	1 cut(s)	327
VpaK11BI	GGWCC	1 cut(s)	78
VspI	ATTAAT	1 cut(s)	302
XagI	CCTNNNNNAGG	1 cut(s)	109
XapI	RAATTY	2 cut(s)	506, 580
XceI	RCATGY	1 cut(s)	160
XspI	CTAG	1 cut(s)	524
ZraI	GACGTC	1 cut(s)	434

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