Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0001856

Physical Location & Seq

Genomic Coordinates Forward (+)

22800398 .. 22801781

Gene Structure 1384 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG145900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 288 bp

ATGTCTTCCAACATGAGAATCTTGGTTACTGGAGGAGCTGGATTCATTGGTTCTCACCTGGTTGACAGATTAATGGAAAATGAAAAGAATGAGGTTATTGTTGTTGATAACTCCTTCACTGGCTCCAAGGACAATCTTAAAAAATGGATTGATGTCACTGAAACATTGTTGGTTGAGGTTGATCGGATATACCATCTTGCATGCCCATCTTCTCCAATTTTCTACAAATATAATCCTGTAAAGACAATAAAAACAAATGTGAGGGCAAGCGTGTTGCTGAGACCTTGA

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:0005829 GO:0005886 GO:0005975 GO:0005996 GO:0008150 GO:0008152 GO:0009987 GO:0016020 GO:0016043 GO:0016829 GO:0016830 GO:0016831 GO:0019321 GO:0022607 GO:0036094 GO:0042732 GO:0042802 GO:0042803 GO:0043167 GO:0043168 GO:0043933 GO:0044085 GO:0044238 GO:0044281 GO:0044424 GO:0044444 GO:0044464 GO:0046983 GO:0048037 GO:0048040 GO:0050662 GO:0051259 GO:0051262 GO:0051287 GO:0065003 GO:0070403 GO:0071704 GO:0071840 GO:0071944 GO:0097159 GO:1901265 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko00520 ko01100 map00520 map01100

Pfam Domains

Protein Families

GDP_Man_Dehyd

Protein Analysis

95

Amino Acids

10.7

Weight (kDa)

8.82

Isoelectric Point (pI)

31.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Epimerase	PF01370	7 - 91	1.6e-12	NAD dependent epimerase/dehydratase family
GDP_Man_Dehyd	PF16363	8 - 50	3.6e-07	GDP-mannose 4,6 dehydratase
3Beta_HSD	PF01073	8 - 56	1.6e-06	3-beta hydroxysteroid dehydrogenase/isomerase family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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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)
AjnI	CCWGG	1 cut(s)	57
AluBI	AGCT	1 cut(s)	38
AluI	AGCT	1 cut(s)	38
Alw26I	GTCTC	1 cut(s)	274
AseI	ATTAAT	1 cut(s)	71
AsuHPI	GGTGA	1 cut(s)	47
BccI	CCATC	2 cut(s)	201, 214
BciT130I	CCWGG	1 cut(s)	59
BcoDI	GTCTC	1 cut(s)	274
Bme1390I	CCNGG	1 cut(s)	59
BmiI	GGNNCC	1 cut(s)	124
BmrFI	CCNGG	1 cut(s)	59
BpmI	CTGGAG	1 cut(s)	51
BsaI	GGTCTC	1 cut(s)	274
BsaJI	CCNNGG	1 cut(s)	126
Bse1I	ACTGG	2 cut(s)	34, 124
BseBI	CCWGG	1 cut(s)	59
BseDI	CCNNGG	1 cut(s)	126
BseMII	CTCAG	1 cut(s)	269
BseNI	ACTGG	2 cut(s)	34, 124
BseRI	GAGGAG	1 cut(s)	48
BsmAI	GTCTC	1 cut(s)	274
Bso31I	GGTCTC	1 cut(s)	274
Bsp143I	GATC	1 cut(s)	181
BspCNI	CTCAG	1 cut(s)	270
BspLI	GGNNCC	1 cut(s)	124
BspTNI	GGTCTC	1 cut(s)	274
BsrI	ACTGG	2 cut(s)	34, 124
BssECI	CCNNGG	1 cut(s)	126
BssMI	GATC	1 cut(s)	181
BssT1I	CCWWGG	1 cut(s)	126
Bst2UI	CCWGG	1 cut(s)	59
BstC8I	GCNNGC	2 cut(s)	202, 268
BstDEI	CTNAG	1 cut(s)	278
BstKTI	GATC	1 cut(s)	184
BstMAI	GTCTC	1 cut(s)	274
BstMBI	GATC	1 cut(s)	181
BstNI	CCWGG	1 cut(s)	59
BstNSI	RCATGY	1 cut(s)	204
BstSCI	CCNGG	1 cut(s)	57
BtsIMutI	CAGTG	2 cut(s)	117, 156
Cac8I	GCNNGC	2 cut(s)	202, 268
CsiI	ACCWGGT	1 cut(s)	57
CviAII	CATG	2 cut(s)	13, 201
CviJI	RGCY	2 cut(s)	38, 123
CviKI_1	RGCY	2 cut(s)	38, 123
DdeI	CTNAG	1 cut(s)	278
DpnI	GATC	1 cut(s)	183
DpnII	GATC	1 cut(s)	181
Eco130I	CCWWGG	1 cut(s)	126
Eco31I	GGTCTC	1 cut(s)	274
EcoRII	CCWGG	1 cut(s)	57
EcoT14I	CCWWGG	1 cut(s)	126
ErhI	CCWWGG	1 cut(s)	126
FaeI	CATG	2 cut(s)	16, 204
FaiI	YATR	4 cut(s)	14, 190, 202, 231
FatI	CATG	2 cut(s)	12, 200
GsuI	CTGGAG	1 cut(s)	51
Hin1II	CATG	2 cut(s)	16, 204
HincII	GTYRAC	1 cut(s)	64
HindII	GTYRAC	1 cut(s)	64
HinfI	GANTC	2 cut(s)	18, 42
HphI	GGTGA	1 cut(s)	47
Hpy166II	GTNNAC	1 cut(s)	64
Hpy188I	TCNGA	1 cut(s)	186
Hpy8I	GTNNAC	1 cut(s)	64
HpyAV	CCTTC	1 cut(s)	124
HpyCH4V	TGCA	1 cut(s)	200
HpyF3I	CTNAG	1 cut(s)	278
Hsp92II	CATG	2 cut(s)	16, 204
Kzo9I	GATC	1 cut(s)	181
LmnI	GCTCC	2 cut(s)	35, 128
LpnPI	CCDG	6 cut(s)	15, 24, 44, 71, 105, 249
MabI	ACCWGGT	1 cut(s)	57
MaeIII	GTNAC	2 cut(s)	25, 154
MalI	GATC	1 cut(s)	183
MboI	GATC	1 cut(s)	181
MboII	GAAGA	1 cut(s)	201
MluCI	AATT	1 cut(s)	216
MmeI	TCCRAC	1 cut(s)	33
MnlI	CCTC	4 cut(s)	26, 85, 169, 255
MseI	TTAA	2 cut(s)	71, 138
MspR9I	CCNGG	1 cut(s)	59
MvaI	CCWGG	1 cut(s)	59
NdeII	GATC	1 cut(s)	181
NlaIII	CATG	2 cut(s)	16, 204
NlaIV	GGNNCC	1 cut(s)	124
NmuCI	GTSAC	1 cut(s)	154
NspI	RCATGY	1 cut(s)	204
PaeI	GCATGC	1 cut(s)	204
PfeI	GAWTC	2 cut(s)	18, 42
PshBI	ATTAAT	1 cut(s)	71
Psp6I	CCWGG	1 cut(s)	57
PspGI	CCWGG	1 cut(s)	57
PspN4I	GGNNCC	1 cut(s)	124
SaqAI	TTAA	2 cut(s)	71, 138
Sau3AI	GATC	1 cut(s)	181
ScrFI	CCNGG	1 cut(s)	59
SetI	ASST	5 cut(s)	40, 60, 96, 180, 286
SexAI	ACCWGGT	1 cut(s)	57
SphI	GCATGC	1 cut(s)	204
Sse9I	AATT	1 cut(s)	216
StyD4I	CCNGG	1 cut(s)	57
StyI	CCWWGG	1 cut(s)	126
TasI	AATT	1 cut(s)	216
TfiI	GAWTC	2 cut(s)	18, 42
Tru1I	TTAA	2 cut(s)	71, 138
Tru9I	TTAA	2 cut(s)	71, 138
TscAI	CASTG	2 cut(s)	124, 163
TseFI	GTSAC	1 cut(s)	154
Tsp45I	GTSAC	1 cut(s)	154
TspDTI	ATGAA	2 cut(s)	34, 96
TspRI	CASTG	2 cut(s)	124, 163
VspI	ATTAAT	1 cut(s)	71
XceI	RCATGY	1 cut(s)	204

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