Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr4

Orthogroup ID

OG0001856

Physical Location & Seq

Genomic Coordinates Reverse (-)

9028233 .. 9030336

Gene Structure 2104 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw4G004490.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 510 bp

ATGAGAATCTTGGTTACTGGAGGAGCTGGATTCATTGGTTCTCACCTGGTTGACAGATTAATGGAAAATGAAAAGAATGAGGTTATTGTTGTTGATAACTACTTCACTGGCTCCAAGGACAATCTTAAAAAATGGATTGGTCATCCCAGATTTGAGCTTATTCGTCATGATGTCACTGAAACATTGTTGGTTGAGGTTGATTGGATATACCATCTTGCATGCCCAGCTTCTCCAATTTTCTACAAATATAATCCTGTAAAGGTATACAATAAAAACAAATGTGAGGGCAAGCGTGTTGCTGAGACCTTGATGTTTGACTATCATCGGCAACATGGGATAGGCCGTTTCCTTGCTGAGCTGACAAAGCAAGTGTTTTCTAATCTTTCTGCCAGTAAATATCAGATTGGCTCCTTGCCTGATGCTCTGTTTTTATACTGCAGATGGCTGAGCACAGAATATCAAAATATGGCAAGAAGCAAAGTGAGTGGGACCAAATGGCTAGTTGGATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0003674 GO:0003824 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0008150 GO:0009987 GO:0016043 GO:0016829 GO:0016830 GO:0016831 GO:0022607 GO:0036094 GO:0042802 GO:0042803 GO:0043167 GO:0043168 GO:0043933 GO:0044085 GO:0044424 GO:0044464 GO:0046983 GO:0048037 GO:0048040 GO:0050662 GO:0051259 GO:0051262 GO:0051287 GO:0065003 GO:0070403 GO:0071840 GO:0097159 GO:1901265 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko00520 ko01100 map00520 map01100

Pfam Domains

Protein Families

GDP_Man_Dehyd

Protein Analysis

169

Amino Acids

19.52

Weight (kDa)

9.08

Isoelectric Point (pI)

31.56

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Epimerase	PF01370	3 - 127	1.3e-11	NAD dependent epimerase/dehydratase family
GDP_Man_Dehyd	PF16363	4 - 77	4.1e-10	GDP-mannose 4,6 dehydratase
3Beta_HSD	PF01073	4 - 74	3.1e-06	3-beta hydroxysteroid dehydrogenase/isomerase family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0001856)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550
malus_domestica	MD03G1096800.v1.1 MD11G1143300.v1.1
prunus_persica	Prupe.6G081100_v2.0.a1 Prupe.6G081100_v2.0.a1 Prupe.6G081100_v2.0.a1 Prupe.6G081100_v2.0.a1 Prupe.6G081100_v2.0.a1 Prupe.6G081100_v2.0.a1
pyrus_communis	pycom03g08000 pycom11g09310
rosa_chinensis	RchiOBHm_Chr5g0063761
rosa_laevigata	RLG00000035666
rosa_multiflora	Rmu_sc0002724.1_g000023
rosa_roxburghii	Rroxscaffold_1G00017090 Rroxscaffold_1G00037850 Rroxscaffold_3G00246740
rosa_rugosa	Rorug03G0248000 Rorug05G0359100 Rorug05G0359200 Rorug05G0359200 Rorug05G0359200 Rorug05G0359200 Rorug05G0359300 Rorug05G0359400
rosa_samantha	Rh2BG210700 Rh5AG128600 Rh5AG389400 Rh5BG433300 Rh5CG456500 Rh5DG446900 Rh5DG449700 Rh6AG145900
rosa_wichuraiana	Rw4G004490 Rw5G039270

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	264
AjnI	CCWGG	1 cut(s)	45
AluBI	AGCT	4 cut(s)	26, 157, 227, 358
AluI	AGCT	4 cut(s)	26, 157, 227, 358
Alw21I	GWGCWC	1 cut(s)	452
Alw26I	GTCTC	1 cut(s)	296
AoxI	GGCC	1 cut(s)	340
AseI	ATTAAT	1 cut(s)	59
AspS9I	GGNCC	1 cut(s)	489
AsuHPI	GGTGA	1 cut(s)	35
AvaII	GGWCC	1 cut(s)	489
Bbv12I	GWGCWC	1 cut(s)	452
BccI	CCATC	2 cut(s)	219, 435
BceAI	ACGGC	1 cut(s)	327
BciT130I	CCWGG	1 cut(s)	47
BcoDI	GTCTC	1 cut(s)	296
BfaI	CTAG	1 cut(s)	500
BfmI	CTRYAG	1 cut(s)	436
BlpI	GCTNAGC	2 cut(s)	354, 446
Bme1390I	CCNGG	1 cut(s)	47
Bme18I	GGWCC	1 cut(s)	489
BmgT120I	GGNCC	1 cut(s)	489
BmiI	GGNNCC	3 cut(s)	112, 409, 490
BmrFI	CCNGG	1 cut(s)	47
BmsI	GCATC	1 cut(s)	409
BpmI	CTGGAG	1 cut(s)	39
Bpu1102I	GCTNAGC	2 cut(s)	354, 446
BsaI	GGTCTC	1 cut(s)	296
BsaJI	CCNNGG	1 cut(s)	114
Bse1I	ACTGG	3 cut(s)	22, 112, 390
BseBI	CCWGG	1 cut(s)	47
BseDI	CCNNGG	1 cut(s)	114
BseGI	GGATG	1 cut(s)	142
BseMII	CTCAG	3 cut(s)	291, 345, 437
BseNI	ACTGG	3 cut(s)	22, 112, 390
BseRI	GAGGAG	1 cut(s)	36
BseYI	CCCAGC	1 cut(s)	223
BshFI	GGCC	1 cut(s)	342
BsiHKAI	GWGCWC	1 cut(s)	452
BslFI	GGGAC	1 cut(s)	502
BsmAI	GTCTC	1 cut(s)	296
BsmFI	GGGAC	1 cut(s)	502
BsnI	GGCC	1 cut(s)	342
Bso31I	GGTCTC	1 cut(s)	296
Bsp1286I	GDGCHC	1 cut(s)	452
Bsp1720I	GCTNAGC	2 cut(s)	354, 446
BspANI	GGCC	1 cut(s)	342
BspCNI	CTCAG	3 cut(s)	292, 346, 438
BspHI	TCATGA	1 cut(s)	166
BspLI	GGNNCC	3 cut(s)	112, 409, 490
BspMAI	CTGCAG	1 cut(s)	440
BspTNI	GGTCTC	1 cut(s)	296
BsrI	ACTGG	3 cut(s)	22, 112, 390
BssECI	CCNNGG	1 cut(s)	114
BssNAI	GTATAC	1 cut(s)	265
BssT1I	CCWWGG	1 cut(s)	114
Bst1107I	GTATAC	1 cut(s)	265
Bst2UI	CCWGG	1 cut(s)	47
BstC8I	GCNNGC	2 cut(s)	220, 290
BstDEI	CTNAG	3 cut(s)	300, 354, 446
BstF5I	GGATG	1 cut(s)	142
BstMAI	GTCTC	1 cut(s)	296
BstMWI	GCNNNNNNNGC	2 cut(s)	224, 364
BstNI	CCWGG	1 cut(s)	47
BstNSI	RCATGY	1 cut(s)	222
BstSCI	CCNGG	1 cut(s)	45
BstSFI	CTRYAG	1 cut(s)	436
BstZ17I	GTATAC	1 cut(s)	265
BsuRI	GGCC	1 cut(s)	342
BtsCI	GGATG	1 cut(s)	142
BtsIMutI	CAGTG	2 cut(s)	105, 174
Cac8I	GCNNGC	2 cut(s)	220, 290
CciI	TCATGA	1 cut(s)	166
Cfr13I	GGNCC	1 cut(s)	489
CsiI	ACCWGGT	1 cut(s)	45
CspCI	CAANNNNNGTGG	2 cut(s)	466, 501
CviAII	CATG	3 cut(s)	167, 219, 332
CviJI	RGCY	9 cut(s)	26, 111, 157, 227, 342, 358, 408, 445, 499
CviKI_1	RGCY	9 cut(s)	26, 111, 157, 227, 342, 358, 408, 445, 499
DdeI	CTNAG	3 cut(s)	300, 354, 446
Eco130I	CCWWGG	1 cut(s)	114
Eco31I	GGTCTC	1 cut(s)	296
Eco47I	GGWCC	1 cut(s)	489
EcoRII	CCWGG	1 cut(s)	45
EcoT14I	CCWWGG	1 cut(s)	114
ErhI	CCWWGG	1 cut(s)	114
FaeI	CATG	3 cut(s)	170, 222, 335
FaiI	YATR	8 cut(s)	168, 208, 220, 249, 265, 333, 433, 467
FaqI	GGGAC	1 cut(s)	502
FatI	CATG	3 cut(s)	166, 218, 331
FblI	GTMKAC	1 cut(s)	264
FokI	GGATG	1 cut(s)	129
FspBI	CTAG	1 cut(s)	500
GsaI	CCCAGC	1 cut(s)	227
GsuI	CTGGAG	1 cut(s)	39
HaeIII	GGCC	1 cut(s)	342
Hin1II	CATG	3 cut(s)	170, 222, 335
HincII	GTYRAC	1 cut(s)	52
HindII	GTYRAC	1 cut(s)	52
HinfI	GANTC	2 cut(s)	6, 30
HphI	GGTGA	1 cut(s)	35
Hpy166II	GTNNAC	2 cut(s)	52, 265
Hpy188I	TCNGA	1 cut(s)	402
Hpy188III	TCNNGA	1 cut(s)	167
Hpy8I	GTNNAC	2 cut(s)	52, 265
HpyCH4V	TGCA	2 cut(s)	218, 438
HpyF10VI	GCNNNNNNNGC	2 cut(s)	224, 364
HpyF3I	CTNAG	3 cut(s)	300, 354, 446
Hsp92II	CATG	3 cut(s)	170, 222, 335
LmnI	GCTCC	3 cut(s)	23, 116, 413
LweI	GCATC	1 cut(s)	409
MabI	ACCWGGT	1 cut(s)	45
MaeI	CTAG	1 cut(s)	500
MaeIII	GTNAC	2 cut(s)	13, 172
MhlI	GDGCHC	1 cut(s)	452
MluCI	AATT	1 cut(s)	234
MmeI	TCCRAC	1 cut(s)	484
MnlI	CCTC	4 cut(s)	14, 73, 187, 277
MseI	TTAA	2 cut(s)	59, 126
MspR9I	CCNGG	1 cut(s)	47
MvaI	CCWGG	1 cut(s)	47
MwoI	GCNNNNNNNGC	2 cut(s)	224, 364
NlaIII	CATG	3 cut(s)	170, 222, 335
NlaIV	GGNNCC	3 cut(s)	112, 409, 490
NmuCI	GTSAC	1 cut(s)	172
NspI	RCATGY	1 cut(s)	222
PaeI	GCATGC	1 cut(s)	222
PagI	TCATGA	1 cut(s)	166
PfeI	GAWTC	2 cut(s)	6, 30
PshBI	ATTAAT	1 cut(s)	59
Psp6I	CCWGG	1 cut(s)	45
PspFI	CCCAGC	1 cut(s)	223
PspGI	CCWGG	1 cut(s)	45
PspN4I	GGNNCC	3 cut(s)	112, 409, 490
PspPI	GGNCC	1 cut(s)	489
PstI	CTGCAG	1 cut(s)	440
SaqAI	TTAA	2 cut(s)	59, 126
Sau96I	GGNCC	1 cut(s)	489
ScrFI	CCNGG	1 cut(s)	47
SduI	GDGCHC	1 cut(s)	452
SetI	ASST	9 cut(s)	28, 48, 84, 159, 198, 229, 264, 308, 360
SexAI	ACCWGGT	1 cut(s)	45
SfaNI	GCATC	1 cut(s)	409
SfcI	CTRYAG	1 cut(s)	436
SinI	GGWCC	1 cut(s)	489
SphI	GCATGC	1 cut(s)	222
Sse9I	AATT	1 cut(s)	234
SspMI	CTAG	1 cut(s)	500
StyD4I	CCNGG	1 cut(s)	45
StyI	CCWWGG	1 cut(s)	114
TasI	AATT	1 cut(s)	234
TfiI	GAWTC	2 cut(s)	6, 30
Tru1I	TTAA	2 cut(s)	59, 126
Tru9I	TTAA	2 cut(s)	59, 126
TscAI	CASTG	2 cut(s)	112, 181
TseFI	GTSAC	1 cut(s)	172
Tsp45I	GTSAC	1 cut(s)	172
TspDTI	ATGAA	2 cut(s)	22, 84
TspRI	CASTG	2 cut(s)	112, 181
VpaK11BI	GGWCC	1 cut(s)	489
VspI	ATTAAT	1 cut(s)	59
XceI	RCATGY	1 cut(s)	222
XmiI	GTMKAC	1 cut(s)	264
XspI	CTAG	1 cut(s)	500

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