Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0003128

Physical Location & Seq

Genomic Coordinates Reverse (-)

59579403 .. 59580272

Gene Structure 870 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG376600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 516 bp

ATGGATTTCATTCCTGGGATTGATGGCCCAAGTGAGGGTGTTCCAAGAGTTCTAGCATGCTTTAGTAATAATCTTCTTCGTCGTGAACCACTCAAGCTTGTAGATGGTGGCGAATCCCAAAGAACTTTTGTTTATATAAAGGATGCTATTGATGCTGTTATGTTGATGATTGAAAATCCTGCTAGGGCCAATGGTCACATTTTCAATGTGGGCAACCCCAACAATGAAGTCACAGTTAGGCAGCTTGGTGAAATGATGACTGAGGTTTATGCAAAGGTAAGTGGTGAGCCAAAACTCGAGCAACCAACTATTGATGTCAGCTCTAAGGAGTTCTATGGAGTGGGATATGATGATAGTGACAAGAGAATTCCAGACATGACTATCATCAACAGGCAGCTTGGCTGGAATCCAAAGACTTCACTATGGGACTTGCTTGAATCAACCCTGACCTATCAGCATAGGACTTATGCCGAGGCTATTAAGAAGGCCATTTCCCAACCAGCTTCTACAAACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0003674 GO:0003824 GO:0005488 GO:0005575 GO:0005576 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009225 GO:0009226 GO:0009987 GO:0016829 GO:0016830 GO:0016831 GO:0018130 GO:0019438 GO:0034641 GO:0034654 GO:0036094 GO:0044237 GO:0044238 GO:0044249 GO:0044271 GO:0044281 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0048037 GO:0048040 GO:0048046 GO:0050662 GO:0051287 GO:0055086 GO:0071704 GO:0097159 GO:1901135 GO:1901137 GO:1901265 GO:1901360 GO:1901362 GO:1901363 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00520 ko01100 map00520 map01100

Pfam Domains

Protein Families

Epimerase

Protein Analysis

171

Amino Acids

19.12

Weight (kDa)

5.08

Isoelectric Point (pI)

41.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Epimerase	PF01370	10 - 71	3.8e-10	NAD dependent epimerase/dehydratase family
GDP_Man_Dehyd	PF16363	24 - 147	1.4e-08	GDP-mannose 4,6 dehydratase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0003128)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G08200
fragaria_vesca	FvH4_3g30060 FvH4_3g30060 FvH4_3g30060 FvH4_3g30060
malus_domestica	MD03G1131500.v1.1 MD03G1131900.v1.1 MD03G1161900.v1.1 MD11G1154500.v1.1 MD11G1215900.v1.1 MD16G1216600.v1.1 MD16G1216800.v1.1
prunus_persica	Prupe.6G116900_v2.0.a1 Prupe.6G116900_v2.0.a1 Prupe.6G116900_v2.0.a1
pyrus_communis	pycom11g12600 pycom11g12610
rosa_chinensis	RchiOBHm_Chr5g0055821
rosa_laevigata	RLG00000002609 RLG00000035011
rosa_multiflora	Rmu_sc0003306.1_g000005 Rmu_sc0003500.1_g000032 Rmu_sc0003500.1_g000033 Rmu_sc0007802.1_g000009
rosa_roxburghii	Rroxscaffold_1G00024520 Rroxscaffold_1G00052150
rosa_rugosa	Rorug05G0295000
rosa_samantha	Rh5AG192800 Rh5AG365900 Rh5BG190400 Rh5BG376600 Rh5CG399600 Rh5DG192100 Rh5DG389500 Rh5DG389600 Rh7BG106200
rosa_wichuraiana	Rw5G034330

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AcsI	RAATTY	1 cut(s)	366
AfiI	CCNNNNNNNGG	2 cut(s)	34, 35
AgsI	TTSAA	3 cut(s)	173, 205, 437
AjnI	CCWGG	1 cut(s)	13
AluBI	AGCT	5 cut(s)	97, 244, 321, 397, 503
AluI	AGCT	5 cut(s)	97, 244, 321, 397, 503
Ama87I	CYCGRG	1 cut(s)	296
AoxI	GGCC	3 cut(s)	25, 186, 486
ApeKI	GCWGC	2 cut(s)	241, 394
ApoI	RAATTY	1 cut(s)	366
AspS9I	GGNCC	2 cut(s)	26, 186
AsuHPI	GGTGA	2 cut(s)	260, 296
AvaI	CYCGRG	1 cut(s)	296
BbvI	GCAGC	2 cut(s)	253, 406
BccI	CCATC	2 cut(s)	17, 98
BciT130I	CCWGG	1 cut(s)	15
BfaI	CTAG	2 cut(s)	53, 183
BisI	GCNGC	2 cut(s)	242, 395
BlsI	GCNGC	2 cut(s)	243, 396
Bme1390I	CCNGG	1 cut(s)	15
BmeT110I	CYCGRG	1 cut(s)	296
BmgT120I	GGNCC	2 cut(s)	26, 186
BmrFI	CCNGG	1 cut(s)	15
BmsI	GCATC	2 cut(s)	133, 142
BpuEI	CTTGAG	1 cut(s)	77
BsaJI	CCNNGG	2 cut(s)	14, 471
Bsc4I	CCNNNNNNNGG	2 cut(s)	34, 35
BseBI	CCWGG	1 cut(s)	15
BseDI	CCNNGG	2 cut(s)	14, 471
BseGI	GGATG	1 cut(s)	148
BseLI	CCNNNNNNNGG	2 cut(s)	34, 35
BseMII	CTCAG	1 cut(s)	252
BseXI	GCAGC	2 cut(s)	253, 406
BshFI	GGCC	3 cut(s)	27, 188, 488
BsiHKCI	CYCGRG	1 cut(s)	296
BslFI	GGGAC	1 cut(s)	440
BslI	CCNNNNNNNGG	2 cut(s)	34, 35
BsmFI	GGGAC	1 cut(s)	440
BsnI	GGCC	3 cut(s)	27, 188, 488
BsoBI	CYCGRG	1 cut(s)	296
BspANI	GGCC	3 cut(s)	27, 188, 488
BspCNI	CTCAG	1 cut(s)	253
BssECI	CCNNGG	2 cut(s)	14, 471
Bst2UI	CCWGG	1 cut(s)	15
Bst4CI	ACNGT	1 cut(s)	235
BstC8I	GCNNGC	1 cut(s)	58
BstDEI	CTNAG	2 cut(s)	261, 324
BstF5I	GGATG	1 cut(s)	148
BstMWI	GCNNNNNNNGC	1 cut(s)	152
BstNI	CCWGG	1 cut(s)	15
BstNSI	RCATGY	1 cut(s)	60
BstSCI	CCNGG	1 cut(s)	13
BstV1I	GCAGC	2 cut(s)	253, 406
BsuRI	GGCC	3 cut(s)	27, 188, 488
BtsCI	GGATG	1 cut(s)	148
Cac8I	GCNNGC	1 cut(s)	58
Cfr13I	GGNCC	2 cut(s)	26, 186
CviAII	CATG	2 cut(s)	57, 376
DdeI	CTNAG	2 cut(s)	261, 324
Eco88I	CYCGRG	1 cut(s)	296
EcoRI	GAATTC	1 cut(s)	366
EcoRII	CCWGG	1 cut(s)	13
FaeI	CATG	2 cut(s)	60, 379
FaqI	GGGAC	1 cut(s)	440
FatI	CATG	2 cut(s)	56, 375
Fnu4HI	GCNGC	2 cut(s)	242, 395
FokI	GGATG	1 cut(s)	155
Fsp4HI	GCNGC	2 cut(s)	242, 395
FspBI	CTAG	2 cut(s)	53, 183
GluI	GCNGC	2 cut(s)	242, 395
HaeIII	GGCC	3 cut(s)	27, 188, 488
Hin1II	CATG	2 cut(s)	60, 379
HindIII	AAGCTT	1 cut(s)	95
HinfI	GANTC	3 cut(s)	113, 406, 437
HphI	GGTGA	2 cut(s)	260, 296
Hpy166II	GTNNAC	1 cut(s)	86
Hpy188III	TCNNGA	2 cut(s)	83, 371
Hpy8I	GTNNAC	1 cut(s)	86
Hpy99I	CGWCG	1 cut(s)	84
HpyAV	CCTTC	1 cut(s)	478
HpyCH4III	ACNGT	1 cut(s)	235
HpyCH4V	TGCA	1 cut(s)	272
HpyF10VI	GCNNNNNNNGC	1 cut(s)	152
HpyF3I	CTNAG	2 cut(s)	261, 324
Hsp92II	CATG	2 cut(s)	60, 379
LpnPI	CCDG	6 cut(s)	27, 192, 376, 384, 388, 458
Lsp1109I	GCAGC	2 cut(s)	253, 406
LweI	GCATC	2 cut(s)	133, 142
MaeI	CTAG	2 cut(s)	53, 183
MaeIII	GTNAC	3 cut(s)	194, 229, 356
MboII	GAAGA	2 cut(s)	65, 68
MluCI	AATT	1 cut(s)	366
MnlI	CCTC	3 cut(s)	28, 256, 466
MseI	TTAA	1 cut(s)	480
MspR9I	CCNGG	1 cut(s)	15
MvaI	CCWGG	1 cut(s)	15
MwoI	GCNNNNNNNGC	1 cut(s)	152
NlaIII	CATG	2 cut(s)	60, 379
NmeAIII	GCCGAG	1 cut(s)	496
NmuCI	GTSAC	3 cut(s)	194, 229, 356
NspI	RCATGY	1 cut(s)	60
PaeI	GCATGC	1 cut(s)	60
PaeR7I	CTCGAG	1 cut(s)	296
PfeI	GAWTC	3 cut(s)	113, 406, 437
PkrI	GCNGC	2 cut(s)	243, 396
Psp6I	CCWGG	1 cut(s)	13
PspGI	CCWGG	1 cut(s)	13
PspPI	GGNCC	2 cut(s)	26, 186
PspXI	VCTCGAGB	1 cut(s)	296
SaqAI	TTAA	1 cut(s)	480
SatI	GCNGC	2 cut(s)	242, 395
Sau96I	GGNCC	2 cut(s)	26, 186
ScrFI	CCNGG	1 cut(s)	15
SetI	ASST	8 cut(s)	99, 246, 267, 279, 323, 399, 452, 505
SfaNI	GCATC	2 cut(s)	133, 142
Sfr274I	CTCGAG	1 cut(s)	296
SlaI	CTCGAG	1 cut(s)	296
SmlI	CTYRAG	2 cut(s)	92, 296
SmoI	CTYRAG	2 cut(s)	92, 296
SphI	GCATGC	1 cut(s)	60
Sse9I	AATT	1 cut(s)	366
SspMI	CTAG	2 cut(s)	53, 183
StyD4I	CCNGG	1 cut(s)	13
TaaI	ACNGT	1 cut(s)	235
TaqI	TCGA	1 cut(s)	297
TasI	AATT	1 cut(s)	366
TfiI	GAWTC	3 cut(s)	113, 406, 437
Tru1I	TTAA	1 cut(s)	480
Tru9I	TTAA	1 cut(s)	480
TseFI	GTSAC	3 cut(s)	194, 229, 356
TseI	GCWGC	2 cut(s)	241, 394
Tsp45I	GTSAC	3 cut(s)	194, 229, 356
TspDTI	ATGAA	1 cut(s)	240
XapI	RAATTY	1 cut(s)	366
XceI	RCATGY	1 cut(s)	60
XhoI	CTCGAG	1 cut(s)	296
XspI	CTAG	2 cut(s)	53, 183

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