Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0018495

Physical Location & Seq

Genomic Coordinates Reverse (-)

21459845 .. 21461277

Gene Structure 1433 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00301080.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 387 bp

ATGGAGGCAGTTGGCTCATGTCTCACAAACAAGTATTCGGAAGGATTACCTGGGAAAAGGTACTATGGTGGAAATGAGCACATTGATGAGCTTGAAACACTAAGCCAAAAAAGGGCCCCGGATACATTTCACCTAGATGGAAAGAAGTGGGGCGTCAATGTTCAACCATTATCTGGTTCTCCAGCTAATTTCGAGGTTTATATAGCAGTTCTTAATCCTCATGATCGTATCATGCCTCTAAGGGGTCCAAGAGGTGGAATGATATTCTTCAAGAAGGATCCAGTTCTTGGAGTTGATTTAGAAACTGCCATCAACAATGCTGTTTTCCGTGCCTTACAAGATATTCAAGAGCTACTTGCTGCATGGAAGCCTTATTTTGATGCTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004372 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0016740 GO:0016741 GO:0016742 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 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

128

Amino Acids

14.28

Weight (kDa)

5.88

Isoelectric Point (pI)

37.96

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SHMT	PF00464	1 - 80	1.8e-37	Serine hydroxymethyltransferase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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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: OG0018495)

Species	Orthologous Gene IDs
malus_domestica	MD09G1269200.v1.1
pyrus_communis	pycom17g26660
rosa_chinensis	RchiOBHm_Chr1g0360671 RchiOBHm_Chr7g0223221
rosa_multiflora	Rmu_co8421897.1_g000001
rosa_roxburghii	Rroxscaffold_4G00301080 Rroxscaffold_7G00212560
rosa_samantha	Rh3BG358300 Rh6AG220400
rosa_wichuraiana	Rw6G019320

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	3 cut(s)	173, 254, 287
AclWI	GGATC	2 cut(s)	272, 285
AcyI	GRCGYC	1 cut(s)	153
AfaI	GTAC	1 cut(s)	62
AfiI	CCNNNNNNNGG	5 cut(s)	112, 173, 242, 254, 287
AgsI	TTSAA	4 cut(s)	95, 164, 271, 347
AjnI	CCWGG	1 cut(s)	49
AluBI	AGCT	3 cut(s)	91, 185, 352
AluI	AGCT	3 cut(s)	91, 185, 352
Alw21I	GWGCWC	1 cut(s)	81
Alw26I	GTCTC	1 cut(s)	26
AlwI	GGATC	2 cut(s)	272, 285
AoxI	GGCC	1 cut(s)	114
ApaI	GGGCCC	1 cut(s)	118
ApeKI	GCWGC	1 cut(s)	359
AspS9I	GGNCC	3 cut(s)	114, 115, 245
AsuC2I	CCSGG	1 cut(s)	119
AsuHPI	GGTGA	1 cut(s)	122
AvaII	GGWCC	1 cut(s)	245
BaeGI	GKGCMC	1 cut(s)	118
BaeI	ACNNNNGTAYC	2 cut(s)	52, 85
BamHI	GGATCC	1 cut(s)	277
BanII	GRGCYC	1 cut(s)	118
Bbv12I	GWGCWC	1 cut(s)	81
BbvI	GCAGC	1 cut(s)	346
BccI	CCATC	2 cut(s)	131, 317
BciT130I	CCWGG	1 cut(s)	51
BciVI	GTATCC	1 cut(s)	115
BcnI	CCSGG	1 cut(s)	119
BcoDI	GTCTC	1 cut(s)	26
BfaI	CTAG	1 cut(s)	134
BfuI	GTATCC	1 cut(s)	115
BisI	GCNGC	1 cut(s)	360
BlsI	GCNGC	1 cut(s)	361
Bme1390I	CCNGG	2 cut(s)	51, 119
Bme18I	GGWCC	1 cut(s)	245
BmgT120I	GGNCC	3 cut(s)	114, 115, 245
BmiI	GGNNCC	4 cut(s)	116, 117, 246, 279
BmrFI	CCNGG	2 cut(s)	51, 119
BmsI	GCATC	1 cut(s)	370
BpmI	CTGGAG	1 cut(s)	165
BpuMI	CCSGG	1 cut(s)	119
BsaHI	GRCGYC	1 cut(s)	153
BsaJI	CCNNGG	2 cut(s)	50, 117
Bsc4I	CCNNNNNNNGG	5 cut(s)	112, 173, 242, 254, 287
Bse1I	ACTGG	1 cut(s)	281
BseBI	CCWGG	1 cut(s)	51
BseDI	CCNNGG	2 cut(s)	50, 117
BseLI	CCNNNNNNNGG	5 cut(s)	112, 173, 242, 254, 287
BseNI	ACTGG	1 cut(s)	281
BseSI	GKGCMC	1 cut(s)	118
BseXI	GCAGC	1 cut(s)	346
BshFI	GGCC	1 cut(s)	116
BsiHKAI	GWGCWC	1 cut(s)	81
BsiSI	CCGG	1 cut(s)	119
BslI	CCNNNNNNNGG	5 cut(s)	112, 173, 242, 254, 287
BsmAI	GTCTC	1 cut(s)	26
BsnI	GGCC	1 cut(s)	116
Bsp120I	GGGCCC	1 cut(s)	114
Bsp1286I	GDGCHC	2 cut(s)	81, 118
Bsp143I	GATC	2 cut(s)	223, 277
BspANI	GGCC	1 cut(s)	116
BspHI	TCATGA	1 cut(s)	220
BspLI	GGNNCC	4 cut(s)	116, 117, 246, 279
BspPI	GGATC	2 cut(s)	272, 285
BsrI	ACTGG	1 cut(s)	281
BssECI	CCNNGG	2 cut(s)	50, 117
BssMI	GATC	2 cut(s)	223, 277
BssNI	GRCGYC	1 cut(s)	153
Bst2UI	CCWGG	1 cut(s)	51
BstACI	GRCGYC	1 cut(s)	153
BstDEI	CTNAG	3 cut(s)	101, 239, 384
BstKTI	GATC	2 cut(s)	226, 280
BstMAI	GTCTC	1 cut(s)	26
BstMBI	GATC	2 cut(s)	223, 277
BstNI	CCWGG	1 cut(s)	51
BstSCI	CCNGG	2 cut(s)	49, 117
BstSLI	GKGCMC	1 cut(s)	118
BstV1I	GCAGC	1 cut(s)	346
BstX2I	RGATCY	1 cut(s)	277
BstYI	RGATCY	1 cut(s)	277
BsuI	GTATCC	1 cut(s)	115
BsuRI	GGCC	1 cut(s)	116
CciI	TCATGA	1 cut(s)	220
Cfr13I	GGNCC	3 cut(s)	114, 115, 245
CseI	GACGC	1 cut(s)	142
Csp6I	GTAC	1 cut(s)	61
CviAII	CATG	4 cut(s)	18, 221, 232, 363
CviJI	RGCY	7 cut(s)	15, 91, 105, 116, 185, 352, 370
CviKI_1	RGCY	7 cut(s)	15, 91, 105, 116, 185, 352, 370
CviQI	GTAC	1 cut(s)	61
DdeI	CTNAG	3 cut(s)	101, 239, 384
DpnI	GATC	2 cut(s)	225, 279
DpnII	GATC	2 cut(s)	223, 277
Eco24I	GRGCYC	1 cut(s)	118
Eco47I	GGWCC	1 cut(s)	245
EcoO109I	RGGNCCY	2 cut(s)	114, 115
EcoRII	CCWGG	1 cut(s)	49
EcoT38I	GRGCYC	1 cut(s)	118
FaeI	CATG	4 cut(s)	21, 224, 235, 366
FaiI	YATR	7 cut(s)	19, 66, 201, 203, 222, 233, 364
FalI	AAGNNNNNCTT	2 cut(s)	339, 371
FatI	CATG	4 cut(s)	17, 220, 231, 362
Fnu4HI	GCNGC	1 cut(s)	360
FriOI	GRGCYC	1 cut(s)	118
Fsp4HI	GCNGC	1 cut(s)	360
FspBI	CTAG	1 cut(s)	134
GluI	GCNGC	1 cut(s)	360
GsuI	CTGGAG	1 cut(s)	165
HaeIII	GGCC	1 cut(s)	116
HapII	CCGG	1 cut(s)	119
HgaI	GACGC	1 cut(s)	142
Hin1I	GRCGYC	1 cut(s)	153
Hin1II	CATG	4 cut(s)	21, 224, 235, 366
HpaII	CCGG	1 cut(s)	119
HphI	GGTGA	1 cut(s)	122
Hpy188I	TCNGA	1 cut(s)	40
Hpy188III	TCNNGA	3 cut(s)	221, 271, 347
HpyAV	CCTTC	2 cut(s)	35, 268
HpyCH4V	TGCA	1 cut(s)	362
HpyF3I	CTNAG	3 cut(s)	101, 239, 384
Hsp92I	GRCGYC	1 cut(s)	153
Hsp92II	CATG	4 cut(s)	21, 224, 235, 366
Kzo9I	GATC	2 cut(s)	223, 277
LpnPI	CCDG	6 cut(s)	36, 63, 132, 159, 195, 294
Lsp1109I	GCAGC	1 cut(s)	346
LweI	GCATC	1 cut(s)	370
MaeI	CTAG	1 cut(s)	134
MalI	GATC	2 cut(s)	225, 279
MboI	GATC	2 cut(s)	223, 277
MboII	GAAGA	1 cut(s)	259
MflI	RGATCY	1 cut(s)	277
MhlI	GDGCHC	2 cut(s)	81, 118
MluCI	AATT	1 cut(s)	187
MnlI	CCTC	4 cut(s)	187, 228, 245, 246
MseI	TTAA	1 cut(s)	213
MslI	CAYNNNNRTG	2 cut(s)	84, 135
MspI	CCGG	1 cut(s)	119
MspR9I	CCNGG	2 cut(s)	51, 119
MvaI	CCWGG	1 cut(s)	51
NciI	CCSGG	1 cut(s)	119
NdeII	GATC	2 cut(s)	223, 277
NlaIII	CATG	4 cut(s)	21, 224, 235, 366
NlaIV	GGNNCC	4 cut(s)	116, 117, 246, 279
PagI	TCATGA	1 cut(s)	220
PflMI	CCANNNNNTGG	3 cut(s)	173, 254, 287
PkrI	GCNGC	1 cut(s)	361
Psp6I	CCWGG	1 cut(s)	49
PspGI	CCWGG	1 cut(s)	49
PspN4I	GGNNCC	4 cut(s)	116, 117, 246, 279
PspOMI	GGGCCC	1 cut(s)	114
PspPI	GGNCC	3 cut(s)	114, 115, 245
PsuI	RGATCY	1 cut(s)	277
RsaI	GTAC	1 cut(s)	62
RsaNI	GTAC	1 cut(s)	61
RseI	CAYNNNNRTG	2 cut(s)	84, 135
SaqAI	TTAA	1 cut(s)	213
SatI	GCNGC	1 cut(s)	360
Sau3AI	GATC	2 cut(s)	223, 277
Sau96I	GGNCC	3 cut(s)	114, 115, 245
ScrFI	CCNGG	2 cut(s)	51, 119
SduI	GDGCHC	2 cut(s)	81, 118
SetI	ASST	8 cut(s)	52, 62, 93, 135, 187, 198, 256, 354
SfaNI	GCATC	1 cut(s)	370
SinI	GGWCC	1 cut(s)	245
SmiMI	CAYNNNNRTG	2 cut(s)	84, 135
Sse9I	AATT	1 cut(s)	187
SspMI	CTAG	1 cut(s)	134
StyD4I	CCNGG	2 cut(s)	49, 117
TaqI	TCGA	1 cut(s)	192
TasI	AATT	1 cut(s)	187
Tru1I	TTAA	1 cut(s)	213
Tru9I	TTAA	1 cut(s)	213
TseI	GCWGC	1 cut(s)	359
TspGWI	ACGGA	1 cut(s)	317
Van91I	CCANNNNNTGG	3 cut(s)	173, 254, 287
VpaK11BI	GGWCC	1 cut(s)	245
XspI	CTAG	1 cut(s)	134

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