Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0008196

Physical Location & Seq

Genomic Coordinates Reverse (-)

13674646 .. 13678443

Gene Structure 3798 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG159400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 558 bp

ATGGTTTTTGAGGCCCTTGACTGTGATTACAAGACCAATGTGATGGGGACCCTTAATATGCTAGGCCTTGCGAAGCGAATTGGGGCTAGGTTTTTAATCACTAGTACCAGTGAGGTCTATGGTGATCCACTGGAGCATCCTCAGAAGGAGACTTACTGGGGAAATGTCAATCCTATAGGTGAGAGGAGCTGTTATGACGAAGGAAAGAGGACGGCAGAGACTCTGGCAATGGATTATCATCGAGGTGCAGGTGTTGAGGTTCGTATTGCTCGAATTTTCAATACATATGGGCCACGTATGTGTTTGGATGATGGGCGTGTTGTCAGCAATTTTGTTGCTCAGGCTATCCGCAAACAACCATTGACTGTGTACGGTGATGGTAAACAAACACGAAGCTTCCAATATGTCTCTGATTTGGTAAATGGACTGGTGGCGTTGATGGAAGGCGAACATGTGGGGCCTTTCAACCTGGGAAATCCCGGGGAATTCACCATGCTAGAGCTTGCTGAGGTATGTTTACGAGACTCATTTTCCATAATCTTAATCTTTTCAATATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0003674 GO:0003824 GO:0005488 GO:0005975 GO:0005996 GO:0008150 GO:0008152 GO:0016829 GO:0016830 GO:0016831 GO:0019321 GO:0036094 GO:0042732 GO:0043167 GO:0043168 GO:0044238 GO:0044281 GO:0048037 GO:0048040 GO:0050662 GO:0051287 GO:0070403 GO:0071704 GO:0097159 GO:1901265 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko00520 ko01100 map00520 map01100

Pfam Domains

Protein Families

GDP_Man_Dehyd

Protein Analysis

185

Amino Acids

20.64

Weight (kDa)

5.23

Isoelectric Point (pI)

21.24

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
GDP_Man_Dehyd	PF16363	10 - 171	6.3e-33	GDP-mannose 4,6 dehydratase
Epimerase	PF01370	10 - 158	6.8e-31	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

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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: OG0008196)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G53520 AT3G53520 AT3G53520 AT3G53520
fragaria_vesca	FvH4_6g14640
malus_domestica	MD04G1118200.v1.1 MD12G1133600.v1.1
prunus_persica	Prupe.6G247300_v2.0.a1 Prupe.6G247300_v2.0.a1
pyrus_communis	pycom04g10780 pycom12g12900
rosa_chinensis	RchiOBHm_Chr3g0467761
rosa_laevigata	RLG00000024475
rosa_multiflora	Rmu_sc0001793.1_g000026
rosa_roxburghii	Rroxscaffold_6G00413440
rosa_rugosa	Rorug03G0089700 Rorug03G0089800 Rorug06G0076700
rosa_samantha	Rh3AG138100 Rh3BG159400 Rh3CG159400 Rh3DG159900
rosa_wichuraiana	Rw3G013080

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	239
Acc36I	ACCTGC	1 cut(s)	239
AciI	CCGC	1 cut(s)	349
AclWI	GGATC	1 cut(s)	119
AcsI	RAATTY	2 cut(s)	273, 485
AfaI	GTAC	2 cut(s)	106, 371
AflIII	ACRYGT	1 cut(s)	451
AgsI	TTSAA	3 cut(s)	280, 466, 552
AhlI	ACTAGT	1 cut(s)	101
AjnI	CCWGG	1 cut(s)	468
AleI	CACNNNNGTG	1 cut(s)	298
AluBI	AGCT	3 cut(s)	189, 396, 502
AluI	AGCT	3 cut(s)	189, 396, 502
Alw26I	GTCTC	4 cut(s)	143, 212, 412, 516
AlwI	GGATC	1 cut(s)	119
Ama87I	CYCGRG	1 cut(s)	479
AoxI	GGCC	4 cut(s)	12, 64, 290, 458
ApoI	RAATTY	2 cut(s)	273, 485
AspS9I	GGNCC	4 cut(s)	13, 48, 290, 458
AsuC2I	CCSGG	2 cut(s)	480, 481
AsuHPI	GGTGA	4 cut(s)	134, 191, 386, 481
AvaI	CYCGRG	1 cut(s)	479
AvaII	GGWCC	1 cut(s)	48
BarI	GAAGNNNNNNTAC	2 cut(s)	137, 169
BbvCI	CCTCAGC	1 cut(s)	507
BccI	CCATC	4 cut(s)	37, 305, 371, 433
BceAI	ACGGC	1 cut(s)	228
BciT130I	CCWGG	1 cut(s)	470
BcnI	CCSGG	2 cut(s)	480, 481
BcoDI	GTCTC	4 cut(s)	143, 212, 412, 516
BcuI	ACTAGT	1 cut(s)	101
BfaI	CTAG	4 cut(s)	62, 87, 102, 497
BfmI	CTRYAG	1 cut(s)	174
BfuAI	ACCTGC	1 cut(s)	239
Bme1390I	CCNGG	3 cut(s)	470, 480, 481
Bme18I	GGWCC	1 cut(s)	48
BmeT110I	CYCGRG	1 cut(s)	479
BmgT120I	GGNCC	4 cut(s)	13, 48, 290, 458
BmiI	GGNNCC	3 cut(s)	49, 50, 459
BmrFI	CCNGG	3 cut(s)	470, 480, 481
BmrI	ACTGGG	1 cut(s)	166
BmsI	GCATC	1 cut(s)	145
BmuI	ACTGGG	1 cut(s)	166
BpmI	CTGGAG	1 cut(s)	152
Bpu10I	CCTNAGC	2 cut(s)	339, 507
BpuMI	CCSGG	2 cut(s)	480, 481
BsaAI	YACGTR	1 cut(s)	296
BsaBI	GATNNNNATC	1 cut(s)	237
BsaJI	CCNNGG	3 cut(s)	469, 479, 480
Bse1I	ACTGG	4 cut(s)	108, 135, 161, 432
Bse3DI	GCAATG	1 cut(s)	234
Bse8I	GATNNNNATC	1 cut(s)	237
BseBI	CCWGG	1 cut(s)	470
BseDI	CCNNGG	3 cut(s)	469, 479, 480
BseGI	GGATG	2 cut(s)	136, 313
BseJI	GATNNNNATC	1 cut(s)	237
BseMI	GCAATG	1 cut(s)	234
BseMII	CTCAG	3 cut(s)	155, 353, 498
BseNI	ACTGG	4 cut(s)	108, 135, 161, 432
BseRI	GAGGAG	1 cut(s)	199
BsgI	GTGCAG	1 cut(s)	267
BshFI	GGCC	4 cut(s)	14, 66, 292, 460
BsiHKCI	CYCGRG	1 cut(s)	479
BsiSI	CCGG	1 cut(s)	480
BslFI	GGGAC	1 cut(s)	61
BsmAI	GTCTC	4 cut(s)	143, 212, 412, 516
BsmFI	GGGAC	1 cut(s)	61
BsnI	GGCC	4 cut(s)	14, 66, 292, 460
BsoBI	CYCGRG	1 cut(s)	479
Bsp143I	GATC	1 cut(s)	124
BspACI	CCGC	1 cut(s)	349
BspANI	GGCC	4 cut(s)	14, 66, 292, 460
BspCNI	CTCAG	3 cut(s)	154, 352, 499
BspLI	GGNNCC	3 cut(s)	49, 50, 459
BspMI	ACCTGC	1 cut(s)	239
BspPI	GGATC	1 cut(s)	119
BsrDI	GCAATG	1 cut(s)	234
BsrI	ACTGG	4 cut(s)	108, 135, 161, 432
BssECI	CCNNGG	3 cut(s)	469, 479, 480
BssMI	GATC	1 cut(s)	124
Bst2UI	CCWGG	1 cut(s)	470
Bst4CI	ACNGT	3 cut(s)	23, 367, 374
BstBAI	YACGTR	1 cut(s)	296
BstC8I	GCNNGC	1 cut(s)	504
BstDEI	CTNAG	3 cut(s)	141, 339, 507
BstF5I	GGATG	2 cut(s)	136, 313
BstKTI	GATC	1 cut(s)	127
BstMAI	GTCTC	4 cut(s)	143, 212, 412, 516
BstMBI	GATC	1 cut(s)	124
BstNI	CCWGG	1 cut(s)	470
BstNSI	RCATGY	1 cut(s)	455
BstSCI	CCNGG	3 cut(s)	468, 478, 479
BstSFI	CTRYAG	1 cut(s)	174
BstXI	CCANNNNNNTGG	1 cut(s)	43
BsuRI	GGCC	4 cut(s)	14, 66, 292, 460
BtsCI	GGATG	2 cut(s)	136, 313
BtsIMutI	CAGTG	2 cut(s)	115, 128
BveI	ACCTGC	1 cut(s)	239
Cac8I	GCNNGC	1 cut(s)	504
Cfr13I	GGNCC	4 cut(s)	13, 48, 290, 458
Cfr9I	CCCGGG	1 cut(s)	479
Csp6I	GTAC	2 cut(s)	105, 370
CviAII	CATG	2 cut(s)	452, 493
CviJI	RGCY	9 cut(s)	14, 66, 86, 189, 292, 344, 396, 460, 502
CviKI_1	RGCY	9 cut(s)	14, 66, 86, 189, 292, 344, 396, 460, 502
CviQI	GTAC	2 cut(s)	105, 370
DdeI	CTNAG	3 cut(s)	141, 339, 507
DpnI	GATC	1 cut(s)	126
DpnII	GATC	1 cut(s)	124
Eco147I	AGGCCT	1 cut(s)	66
Eco47I	GGWCC	1 cut(s)	48
Eco88I	CYCGRG	1 cut(s)	479
EcoO109I	RGGNCCY	3 cut(s)	13, 48, 458
EcoRI	GAATTC	1 cut(s)	485
EcoRII	CCWGG	1 cut(s)	468
FaeI	CATG	2 cut(s)	455, 496
FaqI	GGGAC	1 cut(s)	61
FatI	CATG	2 cut(s)	451, 492
FauNDI	CATATG	1 cut(s)	286
FokI	GGATG	2 cut(s)	123, 320
FspBI	CTAG	4 cut(s)	62, 87, 102, 497
GsuI	CTGGAG	1 cut(s)	152
HaeIII	GGCC	4 cut(s)	14, 66, 292, 460
HapII	CCGG	1 cut(s)	480
Hin1II	CATG	2 cut(s)	455, 496
HindIII	AAGCTT	1 cut(s)	394
HinfI	GANTC	2 cut(s)	220, 524
HpaII	CCGG	1 cut(s)	480
HphI	GGTGA	4 cut(s)	134, 191, 386, 481
Hpy166II	GTNNAC	3 cut(s)	370, 383, 518
Hpy188I	TCNGA	2 cut(s)	144, 412
Hpy8I	GTNNAC	3 cut(s)	370, 383, 518
HpyAV	CCTTC	3 cut(s)	139, 194, 437
HpyCH4III	ACNGT	3 cut(s)	23, 367, 374
HpyCH4IV	ACGT	1 cut(s)	295
HpyCH4V	TGCA	1 cut(s)	248
HpyF3I	CTNAG	3 cut(s)	141, 339, 507
HpySE526I	ACGT	1 cut(s)	295
Hsp92II	CATG	2 cut(s)	455, 496
KflI	GGGWCCC	1 cut(s)	48
Kzo9I	GATC	1 cut(s)	124
LmnI	GCTCC	2 cut(s)	133, 186
LweI	GCATC	1 cut(s)	145
MaeI	CTAG	4 cut(s)	62, 87, 102, 497
MaeII	ACGT	1 cut(s)	295
MalI	GATC	1 cut(s)	126
MboI	GATC	1 cut(s)	124
MluCI	AATT	4 cut(s)	78, 273, 328, 485
MlyI	GAGTC	2 cut(s)	214, 518
MnlI	CCTC	8 cut(s)	4, 106, 150, 177, 201, 236, 250, 502
MseI	TTAA	3 cut(s)	54, 95, 542
MslI	CAYNNNNRTG	2 cut(s)	243, 298
MspI	CCGG	1 cut(s)	480
MspR9I	CCNGG	3 cut(s)	470, 480, 481
MvaI	CCWGG	1 cut(s)	470
NciI	CCSGG	2 cut(s)	480, 481
NdeI	CATATG	1 cut(s)	286
NdeII	GATC	1 cut(s)	124
NlaIII	CATG	2 cut(s)	455, 496
NlaIV	GGNNCC	3 cut(s)	49, 50, 459
NspI	RCATGY	1 cut(s)	455
OliI	CACNNNNGTG	1 cut(s)	298
PaqCI	CACCTGC	1 cut(s)	239
PceI	AGGCCT	1 cut(s)	66
PciI	ACATGT	1 cut(s)	451
PcsI	WCGNNNNNNNCGW	1 cut(s)	268
PleI	GAGTC	2 cut(s)	214, 518
PpsI	GAGTC	2 cut(s)	214, 518
Ppu21I	YACGTR	1 cut(s)	296
PpuMI	RGGWCCY	1 cut(s)	48
PscI	ACATGT	1 cut(s)	451
Psp5II	RGGWCCY	1 cut(s)	48
Psp6I	CCWGG	1 cut(s)	468
PspGI	CCWGG	1 cut(s)	468
PspN4I	GGNNCC	3 cut(s)	49, 50, 459
PspPI	GGNCC	4 cut(s)	13, 48, 290, 458
PspPPI	RGGWCCY	1 cut(s)	48
RsaI	GTAC	2 cut(s)	106, 371
RsaNI	GTAC	2 cut(s)	105, 370
RseI	CAYNNNNRTG	2 cut(s)	243, 298
SaqAI	TTAA	3 cut(s)	54, 95, 542
Sau3AI	GATC	1 cut(s)	124
Sau96I	GGNCC	4 cut(s)	13, 48, 290, 458
SchI	GAGTC	2 cut(s)	214, 518
ScrFI	CCNGG	3 cut(s)	470, 480, 481
SfaNI	GCATC	1 cut(s)	145
SfcI	CTRYAG	1 cut(s)	174
SinI	GGWCC	1 cut(s)	48
SmaI	CCCGGG	1 cut(s)	481
SmiMI	CAYNNNNRTG	2 cut(s)	243, 298
SpeI	ACTAGT	1 cut(s)	101
Sse9I	AATT	4 cut(s)	78, 273, 328, 485
SseBI	AGGCCT	1 cut(s)	66
SsiI	CCGC	1 cut(s)	349
SspMI	CTAG	4 cut(s)	62, 87, 102, 497
StuI	AGGCCT	1 cut(s)	66
StyD4I	CCNGG	3 cut(s)	468, 478, 479
TaaI	ACNGT	3 cut(s)	23, 367, 374
TaiI	ACGT	1 cut(s)	298
TaqI	TCGA	2 cut(s)	241, 271
TasI	AATT	4 cut(s)	78, 273, 328, 485
Tru1I	TTAA	3 cut(s)	54, 95, 542
Tru9I	TTAA	3 cut(s)	54, 95, 542
TscAI	CASTG	2 cut(s)	115, 135
TspMI	CCCGGG	1 cut(s)	479
TspRI	CASTG	2 cut(s)	115, 135
VpaK11BI	GGWCC	1 cut(s)	48
XapI	RAATTY	2 cut(s)	273, 485
XceI	RCATGY	1 cut(s)	455
XmaI	CCCGGG	1 cut(s)	479
XspI	CTAG	4 cut(s)	62, 87, 102, 497

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