Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0002832

Physical Location & Seq

Genomic Coordinates Reverse (-)

60098111 .. 60098932

Gene Structure 822 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG417600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 501 bp

ATGGGGTTGGGATCAGAGTCCGGAGCCGTTTGTGTGACGGGCACCTCCGGTATCGTCGGCTCATGGCTCGTCATGAGACTTCTAGAGCGCGGCTGCACTGTCCGAGTCACCGTGCGAGACCCTGCGAACACGAAGAAGGTGAAGCATCTGCTGGACTTACCGAAGGCAGCGACGCAACTGACGCTGTGGAAGGCGGACCTGGATGTGGAGGGAAGCTTTGATGAAGCCATTAAGGGCTGTGTCGGAGTGTTTCATGTCGCCACGCCTATGGATTTCGAGTCTGAGGAAACAGAGAACGAAGTGATAAAGCCAATAATAAATGGGATGTTAGACATCATGAAAGCATGTCTCAAAGCAAAGACTGTTCGGAGGATGGTGTTTACATCTTCGGCCGGAACTCTCATTGTTGAAGAACATCGAAAGGCAATTTACGACGAAAACAACTGGAGCGATGTTGATTTTTGCCGGAAAGTAAATATGACTGGTTGGGTGCGTAAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0005789 GO:0008150 GO:0008152 GO:0009058 GO:0009718 GO:0009812 GO:0009813 GO:0012505 GO:0016020 GO:0016491 GO:0016614 GO:0016616 GO:0019898 GO:0031090 GO:0031312 GO:0031984 GO:0042175 GO:0042406 GO:0042440 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044425 GO:0044432 GO:0044444 GO:0044446 GO:0044464 GO:0045552 GO:0046148 GO:0046283 GO:0055114 GO:0071704 GO:0098827 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00941 ko01100 ko01110 map00941 map01100 map01110

Pfam Domains

Protein Families

Epimerase

Protein Analysis

166

Amino Acids

18.36

Weight (kDa)

6.82

Isoelectric Point (pI)

19.33

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NmrA	PF05368	9 - 130	3.6e-09	NmrA-like family
Epimerase	PF01370	10 - 132	7e-14	NAD dependent epimerase/dehydratase family
3Beta_HSD	PF01073	12 - 146	6.5e-15	3-beta hydroxysteroid dehydrogenase/isomerase family
GDP_Man_Dehyd	PF16363	12 - 131	1.8e-09	GDP-mannose 4,6 dehydratase
NAD_binding_10	PF13460	14 - 134	3.4e-09	NAD(P)H-binding

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0002832)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G42800
fragaria_vesca	FvH4_2g39520 FvH4_2g39520 FvH4_2g39520 FvH4_2g39520 FvH4_2g39520
malus_domestica	MD08G1028200.v1.1 MD08G1028400.v1.1 MD08G1028600.v1.1 MD15G1024100.v1.1
prunus_persica	Prupe.1G376400_v2.0.a1 Prupe.1G376400_v2.0.a1
pyrus_communis	pycom08g02250 pycom15g02070
rosa_chinensis	RchiOBHm_Chr6g0301421
rosa_laevigata	RLG00000011254 RLG00000011255
rosa_multiflora	Rmu_sc0003058.1_g000015 Rmu_sc0003058.1_g000017 Rmu_sc0014417.1_g000009 Rmu_sc0040371.1_g000001
rosa_roxburghii	Rroxscaffold_171G00441500 Rroxscaffold_7G00166830 Rroxscaffold_7G00172560
rosa_rugosa	Rorug06G0250100 Rorug06G0304400.1 Rorug06G0304500
rosa_samantha	Rh1BG361700 Rh6AG363400 Rh6AG418200 Rh6AG418300 Rh6BG371500 Rh6BG424500 Rh6CG378000 Rh6CG431700 Rh6DG417500 Rh6DG417600
rosa_wichuraiana	Rw6G031710 Rw6G036190

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	41
AccII	CGCG	1 cut(s)	90
AccIII	TCCGGA	1 cut(s)	20
AciI	CCGC	2 cut(s)	90, 194
AclWI	GGATC	1 cut(s)	19
AcoI	YGGCCR	1 cut(s)	390
AfiI	CCNNNNNNNGG	1 cut(s)	205
AgsI	TTSAA	1 cut(s)	410
AjnI	CCWGG	1 cut(s)	198
AluBI	AGCT	1 cut(s)	216
AluI	AGCT	1 cut(s)	216
Alw26I	GTCTC	3 cut(s)	70, 111, 353
AlwI	GGATC	1 cut(s)	19
Aor13HI	TCCGGA	1 cut(s)	20
AoxI	GGCC	1 cut(s)	390
ApeKI	GCWGC	2 cut(s)	93, 167
AspLEI	GCGC	1 cut(s)	90
AspS9I	GGNCC	1 cut(s)	196
AsuHPI	GGTGA	2 cut(s)	100, 151
AvaII	GGWCC	1 cut(s)	196
BaeGI	GKGCMC	1 cut(s)	44
BanI	GGYRCC	1 cut(s)	41
BbvI	GCAGC	2 cut(s)	80, 179
BccI	CCATC	1 cut(s)	367
BceAI	ACGGC	1 cut(s)	11
BciT130I	CCWGG	1 cut(s)	200
BcoDI	GTCTC	3 cut(s)	70, 111, 353
BfaI	CTAG	1 cut(s)	83
BisI	GCNGC	3 cut(s)	91, 94, 168
BlsI	GCNGC	3 cut(s)	92, 95, 169
Bme1390I	CCNGG	1 cut(s)	200
Bme18I	GGWCC	1 cut(s)	196
BmgT120I	GGNCC	1 cut(s)	196
BmiI	GGNNCC	2 cut(s)	25, 43
BmrFI	CCNGG	1 cut(s)	200
BmsI	GCATC	1 cut(s)	154
BpmI	CTGGAG	1 cut(s)	466
BsaI	GGTCTC	1 cut(s)	111
BsaWI	WCCGGW	2 cut(s)	20, 47
Bsc4I	CCNNNNNNNGG	1 cut(s)	205
Bse1I	ACTGG	2 cut(s)	449, 487
BseAI	TCCGGA	1 cut(s)	20
BseBI	CCWGG	1 cut(s)	200
BseGI	GGATG	3 cut(s)	208, 330, 378
BseLI	CCNNNNNNNGG	1 cut(s)	205
BseMII	CTCAG	1 cut(s)	273
BseNI	ACTGG	2 cut(s)	449, 487
BseSI	GKGCMC	1 cut(s)	44
BseX3I	CGGCCG	1 cut(s)	390
BseXI	GCAGC	2 cut(s)	80, 179
BsgI	GTGCAG	1 cut(s)	79
Bsh1236I	CGCG	1 cut(s)	90
Bsh1285I	CGRYCG	1 cut(s)	393
BshFI	GGCC	1 cut(s)	392
BshNI	GGYRCC	1 cut(s)	41
BsiEI	CGRYCG	1 cut(s)	393
BsiSI	CCGG	4 cut(s)	21, 48, 393, 466
BslI	CCNNNNNNNGG	1 cut(s)	205
BsmAI	GTCTC	3 cut(s)	70, 111, 353
BsnI	GGCC	1 cut(s)	392
Bso31I	GGTCTC	1 cut(s)	111
Bsp1286I	GDGCHC	1 cut(s)	44
Bsp13I	TCCGGA	1 cut(s)	20
Bsp143I	GATC	1 cut(s)	11
BspACI	CCGC	2 cut(s)	90, 194
BspANI	GGCC	1 cut(s)	392
BspCNI	CTCAG	1 cut(s)	274
BspEI	TCCGGA	1 cut(s)	20
BspFNI	CGCG	1 cut(s)	90
BspHI	TCATGA	2 cut(s)	72, 336
BspLI	GGNNCC	2 cut(s)	25, 43
BspPI	GGATC	1 cut(s)	19
BspT107I	GGYRCC	1 cut(s)	41
BspTNI	GGTCTC	1 cut(s)	111
BsrI	ACTGG	2 cut(s)	449, 487
BssMI	GATC	1 cut(s)	11
Bst2UI	CCWGG	1 cut(s)	200
Bst4CI	ACNGT	3 cut(s)	100, 112, 364
BstDEI	CTNAG	1 cut(s)	282
BstF5I	GGATG	3 cut(s)	208, 330, 378
BstFNI	CGCG	1 cut(s)	90
BstHHI	GCGC	1 cut(s)	90
BstKTI	GATC	1 cut(s)	14
BstMAI	GTCTC	3 cut(s)	70, 111, 353
BstMBI	GATC	1 cut(s)	11
BstMCI	CGRYCG	1 cut(s)	393
BstMWI	GCNNNNNNNGC	1 cut(s)	181
BstNI	CCWGG	1 cut(s)	200
BstNSI	RCATGY	1 cut(s)	348
BstSCI	CCNGG	1 cut(s)	198
BstSLI	GKGCMC	1 cut(s)	44
BstUI	CGCG	1 cut(s)	90
BstV1I	GCAGC	2 cut(s)	80, 179
BstXI	CCANNNNNNTGG	1 cut(s)	268
BstZI	CGGCCG	1 cut(s)	390
BsuRI	GGCC	1 cut(s)	392
BtgZI	GCGATG	1 cut(s)	465
BtsCI	GGATG	3 cut(s)	208, 330, 378
BtsIMutI	CAGTG	1 cut(s)	96
CciI	TCATGA	2 cut(s)	72, 336
CfoI	GCGC	1 cut(s)	90
Cfr13I	GGNCC	1 cut(s)	196
CseI	GACGC	2 cut(s)	181, 190
CviAII	CATG	5 cut(s)	63, 73, 254, 337, 345
CviJI	RGCY	9 cut(s)	26, 60, 67, 93, 216, 227, 237, 310, 392
CviKI_1	RGCY	9 cut(s)	26, 60, 67, 93, 216, 227, 237, 310, 392
DdeI	CTNAG	1 cut(s)	282
DpnI	GATC	1 cut(s)	13
DpnII	GATC	1 cut(s)	11
EaeI	YGGCCR	1 cut(s)	390
EagI	CGGCCG	1 cut(s)	390
EciI	GGCGGA	1 cut(s)	209
EclXI	CGGCCG	1 cut(s)	390
Eco31I	GGTCTC	1 cut(s)	111
Eco47I	GGWCC	1 cut(s)	196
Eco52I	CGGCCG	1 cut(s)	390
EcoRII	CCWGG	1 cut(s)	198
FaeI	CATG	5 cut(s)	66, 76, 257, 340, 348
FaiI	YATR	7 cut(s)	64, 74, 255, 269, 338, 346, 479
FatI	CATG	5 cut(s)	62, 72, 253, 336, 344
Fnu4HI	GCNGC	3 cut(s)	91, 94, 168
FokI	GGATG	3 cut(s)	215, 337, 385
Fsp4HI	GCNGC	3 cut(s)	91, 94, 168
FspBI	CTAG	1 cut(s)	83
GlaI	GCGC	1 cut(s)	89
GluI	GCNGC	3 cut(s)	91, 94, 168
GsuI	CTGGAG	1 cut(s)	466
HaeIII	GGCC	1 cut(s)	392
HapII	CCGG	4 cut(s)	21, 48, 393, 466
HgaI	GACGC	2 cut(s)	181, 190
HhaI	GCGC	1 cut(s)	90
Hin1II	CATG	5 cut(s)	66, 76, 257, 340, 348
Hin6I	GCGC	1 cut(s)	88
HinP1I	GCGC	1 cut(s)	88
HindIII	AAGCTT	1 cut(s)	214
HinfI	GANTC	3 cut(s)	17, 105, 278
HpaII	CCGG	4 cut(s)	21, 48, 393, 466
HphI	GGTGA	2 cut(s)	100, 151
Hpy166II	GTNNAC	1 cut(s)	381
Hpy188I	TCNGA	5 cut(s)	16, 104, 245, 283, 369
Hpy188III	TCNNGA	4 cut(s)	21, 73, 83, 337
Hpy8I	GTNNAC	1 cut(s)	381
Hpy99I	CGWCG	3 cut(s)	59, 175, 437
HpyAV	CCTTC	3 cut(s)	130, 157, 184
HpyCH4III	ACNGT	3 cut(s)	100, 112, 364
HpyCH4V	TGCA	1 cut(s)	96
HpyF10VI	GCNNNNNNNGC	1 cut(s)	181
HpyF3I	CTNAG	1 cut(s)	282
Hsp92II	CATG	5 cut(s)	66, 76, 257, 340, 348
HspAI	GCGC	1 cut(s)	88
Kpn2I	TCCGGA	1 cut(s)	20
Kzo9I	GATC	1 cut(s)	11
LmnI	GCTCC	2 cut(s)	23, 447
Lsp1109I	GCAGC	2 cut(s)	80, 179
LweI	GCATC	1 cut(s)	154
MaeI	CTAG	1 cut(s)	83
MaeIII	GTNAC	2 cut(s)	34, 106
MalI	GATC	1 cut(s)	13
MboI	GATC	1 cut(s)	11
MboII	GAAGA	3 cut(s)	145, 378, 422
MhlI	GDGCHC	1 cut(s)	44
MluCI	AATT	1 cut(s)	426
MlyI	GAGTC	3 cut(s)	26, 114, 287
MmeI	TCCRAC	1 cut(s)	223
MnlI	CCTC	4 cut(s)	55, 202, 277, 363
MroI	TCCGGA	1 cut(s)	20
MseI	TTAA	1 cut(s)	231
MslI	CAYNNNNRTG	1 cut(s)	266
MspI	CCGG	4 cut(s)	21, 48, 393, 466
MspR9I	CCNGG	1 cut(s)	200
MvaI	CCWGG	1 cut(s)	200
MvnI	CGCG	1 cut(s)	90
MwoI	GCNNNNNNNGC	1 cut(s)	181
NdeII	GATC	1 cut(s)	11
NlaIII	CATG	5 cut(s)	66, 76, 257, 340, 348
NlaIV	GGNNCC	2 cut(s)	25, 43
NmuCI	GTSAC	2 cut(s)	34, 106
NspI	RCATGY	1 cut(s)	348
PagI	TCATGA	2 cut(s)	72, 336
PkrI	GCNGC	3 cut(s)	92, 95, 169
PleI	GAGTC	3 cut(s)	25, 113, 286
PpsI	GAGTC	3 cut(s)	25, 113, 286
Psp6I	CCWGG	1 cut(s)	198
PspGI	CCWGG	1 cut(s)	198
PspN4I	GGNNCC	2 cut(s)	25, 43
PspPI	GGNCC	1 cut(s)	196
RseI	CAYNNNNRTG	1 cut(s)	266
SaqAI	TTAA	1 cut(s)	231
SatI	GCNGC	3 cut(s)	91, 94, 168
Sau3AI	GATC	1 cut(s)	11
Sau96I	GGNCC	1 cut(s)	196
SchI	GAGTC	3 cut(s)	26, 114, 287
ScrFI	CCNGG	1 cut(s)	200
SduI	GDGCHC	1 cut(s)	44
SetI	ASST	4 cut(s)	47, 141, 201, 218
SfaNI	GCATC	1 cut(s)	154
SinI	GGWCC	1 cut(s)	196
SmiMI	CAYNNNNRTG	1 cut(s)	266
Sse9I	AATT	1 cut(s)	426
SsiI	CCGC	2 cut(s)	90, 194
SspMI	CTAG	1 cut(s)	83
StyD4I	CCNGG	1 cut(s)	198
TaaI	ACNGT	3 cut(s)	100, 112, 364
TaqI	TCGA	2 cut(s)	276, 418
TasI	AATT	1 cut(s)	426
TauI	GCSGC	1 cut(s)	93
Tru1I	TTAA	1 cut(s)	231
Tru9I	TTAA	1 cut(s)	231
TscAI	CASTG	1 cut(s)	103
TseFI	GTSAC	2 cut(s)	34, 106
TseI	GCWGC	2 cut(s)	93, 167
Tsp45I	GTSAC	2 cut(s)	34, 106
TspDTI	ATGAA	3 cut(s)	237, 242, 353
TspRI	CASTG	1 cut(s)	103
VpaK11BI	GGWCC	1 cut(s)	196
XbaI	TCTAGA	1 cut(s)	82
XceI	RCATGY	1 cut(s)	348
XspI	CTAG	1 cut(s)	83

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