Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0002413

Physical Location & Seq

Genomic Coordinates Reverse (-)

55596372 .. 55600186

Gene Structure 3815 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG331000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 795 bp

ATGTGTTCTTTTCTTCATGAAGATGTCACCGAGCCATTGCTGGTTGAGGTTGATCAAATATTCCATCTTGCTTGCCCTGCTTCTCCTATCTTCTACAAACACAATCCAGTAAAGACAATAAAGACAAATGTGATCGGTACATTGAACATGCTGGGACTGGCCAAGCGAGTTGGAGCGAGGATTTTGCTCACTTCTACTTCGGAGGTGTATGGAGATCCTCTTATTCACCCTCAGGTTGAGAGCTATTGGGGAAATGTGAATCCAATTGGAGTTAGGAGTTGCTATGATGAGGGAAAGCGAGTGGCTGAAACATTGATGTTTGATTATCACAGGCAGCACGGCATAGAGATACGGATTGCTAGGATTTTCAACACTTATGGACCTCGCATGAATATTGATGATGGCCGTGTCGTCAGCAACTTTATAGCCCAAGCTATCCGGAATGACCCCTTGACTGTTCAAGCGCCTGGAACACAGACAAGGAGTTTCTGCTACGTCTCTGACATGGTTGATGGCCTTATTCGACTTATGGAAGGAGACAACACTGGTCCAATCAACATTGGGAATCCAGGTGAATTTACAATGCTCGAACTCGCAGAGAATGTCAAGGAGCTTATCAATCCTAAGGTGGAGATTAAAATGGTTGAAAACACACCTGATGATCCTCGGCAGAGGAAGCCTGACATCTCAAAAGCAAAGGAGTTGCTGGGATGGGAACCAAAGGTCAAGTTGCGTGATGGTCTGCCCCTCATGGAAGATGATTTCCGTACAAGACTTGGTGTCCCCAGAAATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0003674 GO:0003824 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005794 GO:0012505 GO:0016829 GO:0016830 GO:0016831 GO:0036094 GO:0043167 GO:0043168 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0048037 GO:0048040 GO:0050662 GO:0051287 GO:0070403 GO:0097159 GO:1901265 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko00520 ko01100 map00520 map01100

Pfam Domains

Protein Families

GDP_Man_Dehyd

Protein Analysis

264

Amino Acids

29.8

Weight (kDa)

5.91

Isoelectric Point (pI)

33.07

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NAD_binding_4	PF07993	6 - 124	1.8e-06	Male sterility protein
GDP_Man_Dehyd	PF16363	15 - 249	1.1e-38	GDP-mannose 4,6 dehydratase
Epimerase	PF01370	15 - 188	1.9e-34	NAD dependent epimerase/dehydratase family

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: OG0002413)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G28755 AT2G28755
fragaria_vesca	FvH4_1g22830 FvH4_1g22850 FvH4_6g23040 FvH4_7g22040 FvH4_7g22040 FvH4_7g22040
prunus_persica	Prupe.2G232500_v2.0.a1 Prupe.2G232500_v2.0.a1 Prupe.2G232500_v2.0.a1 Prupe.2G232500_v2.0.a1 Prupe.2G232500_v2.0.a1 Prupe.2G232500_v2.0.a1 Prupe.2G232500_v2.0.a1 Prupe.2G232500_v2.0.a1 Prupe.2G232500_v2.0.a1
pyrus_communis	pycom01g15140 pycom07g18370
rosa_chinensis	RchiOBHm_Chr1g0366401 RchiOBHm_Chr2g0117191
rosa_laevigata	RLG00000018334 RLG00000027347
rosa_multiflora	Rmu_ssc0000250.1_g000016
rosa_roxburghii	Rroxscaffold_2G00126670 Rroxscaffold_4G00289940 Rroxscaffold_4G00290200
rosa_rugosa	Rorug01G0329500 Rorug01G0329600 Rorug01G0329700 Rorug01G0329800 Rorug01G0329900 Rorug02G0210800
rosa_samantha	Rh1AG337800 Rh1BG299300 Rh1DG331000 Rh2AG266900 Rh2BG279000 Rh2DG293100
rosa_wichuraiana	Rw1G029910 Rw2G021050

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccIII	TCCGGA	1 cut(s)	438
AclWI	GGATC	2 cut(s)	209, 656
AcoI	YGGCCR	2 cut(s)	159, 403
AcsI	RAATTY	1 cut(s)	575
AfaI	GTAC	2 cut(s)	139, 769
AgsI	TTSAA	4 cut(s)	145, 370, 461, 647
AhdI	GACNNNNNGTC	1 cut(s)	779
AjnI	CCWGG	2 cut(s)	466, 568
AluBI	AGCT	3 cut(s)	243, 434, 613
AluI	AGCT	3 cut(s)	243, 434, 613
Alw26I	GTCTC	2 cut(s)	502, 531
AlwI	GGATC	2 cut(s)	209, 656
Aor13HI	TCCGGA	1 cut(s)	438
AoxI	GGCC	3 cut(s)	159, 403, 514
ApeKI	GCWGC	1 cut(s)	334
ApoI	RAATTY	1 cut(s)	575
AspLEI	GCGC	1 cut(s)	466
AspS9I	GGNCC	2 cut(s)	380, 548
AsuHPI	GGTGA	3 cut(s)	19, 218, 584
AvaII	GGWCC	2 cut(s)	380, 548
AxyI	CCTNAGG	2 cut(s)	231, 624
BalI	TGGCCA	1 cut(s)	161
BbvI	GCAGC	1 cut(s)	346
BccI	CCATC	5 cut(s)	72, 395, 506, 705, 731
BceAI	ACGGC	2 cut(s)	355, 390
BcgI	CGANNNNNNTGC	2 cut(s)	166, 200
BciT130I	CCWGG	2 cut(s)	468, 570
BclI	TGATCA	1 cut(s)	52
BcoDI	GTCTC	2 cut(s)	502, 531
BfaI	CTAG	1 cut(s)	360
BfoI	RGCGCY	1 cut(s)	467
BisI	GCNGC	1 cut(s)	335
BlsI	GCNGC	1 cut(s)	336
Bme1390I	CCNGG	2 cut(s)	468, 570
Bme18I	GGWCC	2 cut(s)	380, 548
BmeRI	GACNNNNNGTC	1 cut(s)	779
BmgT120I	GGNCC	2 cut(s)	380, 548
BmiI	GGNNCC	1 cut(s)	717
BmrFI	CCNGG	2 cut(s)	468, 570
BsaJI	CCNNGG	1 cut(s)	665
BsaWI	WCCGGW	1 cut(s)	438
Bse1I	ACTGG	3 cut(s)	107, 162, 550
Bse21I	CCTNAGG	2 cut(s)	231, 624
Bse3DI	GCAATG	1 cut(s)	35
BseAI	TCCGGA	1 cut(s)	438
BseBI	CCWGG	2 cut(s)	468, 570
BseDI	CCNNGG	1 cut(s)	665
BseGI	GGATG	1 cut(s)	716
BseMI	GCAATG	1 cut(s)	35
BseMII	CTCAG	1 cut(s)	245
BseNI	ACTGG	3 cut(s)	107, 162, 550
BseXI	GCAGC	1 cut(s)	346
BseYI	CCCAGC	2 cut(s)	151, 706
BshFI	GGCC	3 cut(s)	161, 405, 516
BsiSI	CCGG	1 cut(s)	439
BslFI	GGGAC	2 cut(s)	168, 767
BsmAI	GTCTC	2 cut(s)	502, 531
BsmBI	CGTCTC	1 cut(s)	502
BsmFI	GGGAC	2 cut(s)	168, 767
BsnI	GGCC	3 cut(s)	161, 405, 516
Bsp13I	TCCGGA	1 cut(s)	438
Bsp143I	GATC	4 cut(s)	52, 132, 214, 661
BspANI	GGCC	3 cut(s)	161, 405, 516
BspCNI	CTCAG	1 cut(s)	244
BspEI	TCCGGA	1 cut(s)	438
BspHI	TCATGA	1 cut(s)	16
BspLI	GGNNCC	1 cut(s)	717
BspPI	GGATC	2 cut(s)	209, 656
BsrDI	GCAATG	1 cut(s)	35
BsrI	ACTGG	3 cut(s)	107, 162, 550
BssECI	CCNNGG	1 cut(s)	665
BssMI	GATC	4 cut(s)	52, 132, 214, 661
Bst2UI	CCWGG	2 cut(s)	468, 570
Bst4CI	ACNGT	1 cut(s)	457
BstC8I	GCNNGC	1 cut(s)	73
BstDEI	CTNAG	2 cut(s)	231, 624
BstF5I	GGATG	1 cut(s)	716
BstH2I	RGCGCY	1 cut(s)	467
BstHHI	GCGC	1 cut(s)	466
BstKTI	GATC	4 cut(s)	55, 135, 217, 664
BstMAI	GTCTC	2 cut(s)	502, 531
BstMBI	GATC	4 cut(s)	52, 132, 214, 661
BstMWI	GCNNNNNNNGC	2 cut(s)	77, 676
BstNI	CCWGG	2 cut(s)	468, 570
BstNSI	RCATGY	1 cut(s)	151
BstSCI	CCNGG	2 cut(s)	466, 568
BstV1I	GCAGC	1 cut(s)	346
BstX2I	RGATCY	1 cut(s)	214
BstYI	RGATCY	1 cut(s)	214
Bsu36I	CCTNAGG	2 cut(s)	231, 624
BsuRI	GGCC	3 cut(s)	161, 405, 516
BtsCI	GGATG	1 cut(s)	716
BtsIMutI	CAGTG	1 cut(s)	543
Cac8I	GCNNGC	1 cut(s)	73
CciI	TCATGA	1 cut(s)	16
CfoI	GCGC	1 cut(s)	466
Cfr13I	GGNCC	2 cut(s)	380, 548
Csp6I	GTAC	2 cut(s)	138, 768
CviAII	CATG	5 cut(s)	17, 148, 388, 505, 751
CviQI	GTAC	2 cut(s)	138, 768
DdeI	CTNAG	2 cut(s)	231, 624
DpnI	GATC	4 cut(s)	54, 134, 216, 663
DpnII	GATC	4 cut(s)	52, 132, 214, 661
DriI	GACNNNNNGTC	1 cut(s)	779
EaeI	YGGCCR	2 cut(s)	159, 403
Eam1105I	GACNNNNNGTC	1 cut(s)	779
Eco47I	GGWCC	2 cut(s)	380, 548
Eco81I	CCTNAGG	2 cut(s)	231, 624
EcoRII	CCWGG	2 cut(s)	466, 568
Esp3I	CGTCTC	1 cut(s)	502
FaeI	CATG	5 cut(s)	20, 151, 391, 508, 754
FaqI	GGGAC	2 cut(s)	168, 767
FatI	CATG	5 cut(s)	16, 147, 387, 504, 750
FbaI	TGATCA	1 cut(s)	52
Fnu4HI	GCNGC	1 cut(s)	335
FokI	GGATG	1 cut(s)	723
Fsp4HI	GCNGC	1 cut(s)	335
FspBI	CTAG	1 cut(s)	360
GlaI	GCGC	1 cut(s)	465
GluI	GCNGC	1 cut(s)	335
GsaI	CCCAGC	2 cut(s)	155, 710
HaeII	RGCGCY	1 cut(s)	467
HaeIII	GGCC	3 cut(s)	161, 405, 516
HapII	CCGG	1 cut(s)	439
HhaI	GCGC	1 cut(s)	466
Hin1II	CATG	5 cut(s)	20, 151, 391, 508, 754
Hin6I	GCGC	1 cut(s)	464
HinP1I	GCGC	1 cut(s)	464
HinfI	GANTC	2 cut(s)	259, 565
HpaII	CCGG	1 cut(s)	439
HphI	GGTGA	3 cut(s)	19, 218, 584
Hpy188I	TCNGA	2 cut(s)	202, 502
Hpy188III	TCNNGA	2 cut(s)	17, 439
HpyAV	CCTTC	1 cut(s)	527
HpyCH4III	ACNGT	1 cut(s)	457
HpyCH4IV	ACGT	1 cut(s)	495
HpyF10VI	GCNNNNNNNGC	2 cut(s)	77, 676
HpyF3I	CTNAG	2 cut(s)	231, 624
HpySE526I	ACGT	1 cut(s)	495
Hsp92II	CATG	5 cut(s)	20, 151, 391, 508, 754
HspAI	GCGC	1 cut(s)	464
Kpn2I	TCCGGA	1 cut(s)	438
Ksp22I	TGATCA	1 cut(s)	52
Kzo9I	GATC	4 cut(s)	52, 132, 214, 661
LmnI	GCTCC	2 cut(s)	173, 610
Lsp1109I	GCAGC	1 cut(s)	346
MaeI	CTAG	1 cut(s)	360
MaeII	ACGT	1 cut(s)	495
MaeIII	GTNAC	1 cut(s)	25
MalI	GATC	4 cut(s)	54, 134, 216, 663
MboI	GATC	4 cut(s)	52, 132, 214, 661
MboII	GAAGA	4 cut(s)	5, 32, 82, 767
MfeI	CAATTG	1 cut(s)	264
MflI	RGATCY	1 cut(s)	214
MlsI	TGGCCA	1 cut(s)	161
MluCI	AATT	3 cut(s)	264, 575, 790
MluNI	TGGCCA	1 cut(s)	161
MmeI	TCCRAC	1 cut(s)	151
Mox20I	TGGCCA	1 cut(s)	161
MroI	TCCGGA	1 cut(s)	438
MscI	TGGCCA	1 cut(s)	161
MseI	TTAA	2 cut(s)	636, 793
MslI	CAYNNNNRTG	1 cut(s)	21
Msp20I	TGGCCA	1 cut(s)	161
MspI	CCGG	1 cut(s)	439
MspR9I	CCNGG	2 cut(s)	468, 570
MunI	CAATTG	1 cut(s)	264
MvaI	CCWGG	2 cut(s)	468, 570
MwoI	GCNNNNNNNGC	2 cut(s)	77, 676
NdeII	GATC	4 cut(s)	52, 132, 214, 661
NlaIII	CATG	5 cut(s)	20, 151, 391, 508, 754
NlaIV	GGNNCC	1 cut(s)	717
NmeAIII	GCCGAG	1 cut(s)	646
NmuCI	GTSAC	1 cut(s)	25
NspI	RCATGY	1 cut(s)	151
PagI	TCATGA	1 cut(s)	16
PfeI	GAWTC	2 cut(s)	259, 565
PkrI	GCNGC	1 cut(s)	336
Psp6I	CCWGG	2 cut(s)	466, 568
PspFI	CCCAGC	2 cut(s)	151, 706
PspGI	CCWGG	2 cut(s)	466, 568
PspN4I	GGNNCC	1 cut(s)	717
PspPI	GGNCC	2 cut(s)	380, 548
PsuI	RGATCY	1 cut(s)	214
RsaI	GTAC	2 cut(s)	139, 769
RsaNI	GTAC	2 cut(s)	138, 768
RseI	CAYNNNNRTG	1 cut(s)	21
SaqAI	TTAA	2 cut(s)	636, 793
SatI	GCNGC	1 cut(s)	335
Sau3AI	GATC	4 cut(s)	52, 132, 214, 661
Sau96I	GGNCC	2 cut(s)	380, 548
ScrFI	CCNGG	2 cut(s)	468, 570
SinI	GGWCC	2 cut(s)	380, 548
SmiMI	CAYNNNNRTG	1 cut(s)	21
Sse9I	AATT	3 cut(s)	264, 575, 790
SspI	AATATT	2 cut(s)	60, 394
SspMI	CTAG	1 cut(s)	360
StyD4I	CCNGG	2 cut(s)	466, 568
TaaI	ACNGT	1 cut(s)	457
TaiI	ACGT	1 cut(s)	498
TaqI	TCGA	2 cut(s)	523, 588
TasI	AATT	3 cut(s)	264, 575, 790
TfiI	GAWTC	2 cut(s)	259, 565
Tru1I	TTAA	2 cut(s)	636, 793
Tru9I	TTAA	2 cut(s)	636, 793
TscAI	CASTG	1 cut(s)	550
TseFI	GTSAC	1 cut(s)	25
TseI	GCWGC	1 cut(s)	334
Tsp45I	GTSAC	1 cut(s)	25
TspDTI	ATGAA	3 cut(s)	5, 33, 404
TspGWI	ACGGA	2 cut(s)	367, 755
TspRI	CASTG	1 cut(s)	550
VpaK11BI	GGWCC	2 cut(s)	380, 548
XapI	RAATTY	1 cut(s)	575
XceI	RCATGY	1 cut(s)	151
XspI	CTAG	1 cut(s)	360

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