Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0003420

Physical Location & Seq

Genomic Coordinates Reverse (-)

5353946 .. 5355444

Gene Structure 1499 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG028600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 438 bp

ATGGGAGGTATGGGGTTCATTCAGTCCAACCATTCCGTCATTATGTATAACAATACAATGATCAGCTTTAATATGCTTGAGGCAGCAAGGATCAATGGAGCTAAGAGGTTCTTTTATGCCTCTAGTGCTTGCATTTACCCTGAATTTAAACAGTTGGATACTAATGTGAGCTTGAAGGAGTCTGATGCTTGGCCTGCGGAGCCTCAAGATGCCTATGGCTTGGAGAAGCTCATGACTGAAGAATTATGCAAGCACTTTAATAAGGACTTTAGTATTGAATGTCGGATTGGACGGTTTCACAACATTTATGGACCCTTCGGCACTTGGAAAGGTGGTAGAGAGAAGGCCCCTGCTGCTTTTTGTAGAAAATTTACTTCCACTGATAGGTTTGAGATGTGGGGAGACGGGCTACAGACTCGGTCTTCCAAAGCAGATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0003674 GO:0003824 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0005975 GO:0005996 GO:0006082 GO:0006732 GO:0006766 GO:0006767 GO:0008150 GO:0008152 GO:0009058 GO:0009108 GO:0009110 GO:0009987 GO:0016051 GO:0016053 GO:0016853 GO:0016854 GO:0016857 GO:0019752 GO:0019852 GO:0019853 GO:0036094 GO:0042364 GO:0043436 GO:0044237 GO:0044238 GO:0044249 GO:0044281 GO:0044283 GO:0044424 GO:0044444 GO:0044464 GO:0046364 GO:0046394 GO:0047918 GO:0048037 GO:0050662 GO:0051186 GO:0051188 GO:0051287 GO:0071704 GO:0097159 GO:1901265 GO:1901363 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00053 ko00520 ko01100 ko01110 map00053 map00520 map01100 map01110

Pfam Domains

Protein Families

Epimerase

Protein Analysis

145

Amino Acids

16.54

Weight (kDa)

7.67

Isoelectric Point (pI)

50.51

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Epimerase	PF01370	11 - 140	5.1e-24	NAD dependent epimerase/dehydratase family
GDP_Man_Dehyd	PF16363	15 - 122	7.1e-09	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: OG0003420)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G28840 AT5G28840
fragaria_vesca	FvH4_6g02980
malus_domestica	MD04G1224100.v1.1 MD04G1224200.v1.1 MD12G1240900.v1.1
prunus_persica	Prupe.1G025100_v2.0.a1 Prupe.1G025100_v2.0.a1 Prupe.6G342800_v2.0.a1
pyrus_communis	pycom04g19750
rosa_chinensis	RchiOBHm_Chr3g0451161 RchiOBHm_Chr4g0388911
rosa_laevigata	RLG00000010008 RLG00000010011 RLG00000025681 RLG00000025682
rosa_multiflora	Rmu_co8299443.1_g000001 Rmu_sc0005486.1_g000010 Rmu_ssc0000028.1_g000003
rosa_roxburghii	Rroxscaffold_5G00335220 Rroxscaffold_6G00428630
rosa_rugosa	Rorug02G0632400 Rorug02G0632500 Rorug03G0321000 Rorug03G0321000 Rorug03G0321100
rosa_samantha	Rh3AG034900 Rh3BG035300 Rh3CG033800 Rh3CG033900 Rh3DG034900 Rh4BG018800 Rh4CG028600 Rh4DG019300
rosa_wichuraiana	Rw3G002560 Rw4G001840

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	197
AclWI	GGATC	1 cut(s)	98
AcsI	RAATTY	2 cut(s)	143, 368
AcuI	CTGAAG	1 cut(s)	258
AfiI	CCNNNNNNNGG	1 cut(s)	384
AgsI	TTSAA	2 cut(s)	175, 278
AjuI	GAANNNNNNNTTGG	2 cut(s)	270, 302
AluBI	AGCT	4 cut(s)	66, 101, 171, 229
AluI	AGCT	4 cut(s)	66, 101, 171, 229
Alw26I	GTCTC	1 cut(s)	396
AlwI	GGATC	1 cut(s)	98
AoxI	GGCC	2 cut(s)	191, 345
ApeKI	GCWGC	2 cut(s)	83, 353
ApoI	RAATTY	2 cut(s)	143, 368
AspS9I	GGNCC	2 cut(s)	311, 346
AvaII	GGWCC	1 cut(s)	311
BaeI	ACNNNNGTAYC	2 cut(s)	150, 183
BbsI	GAAGAC	1 cut(s)	414
BbvI	GCAGC	2 cut(s)	95, 340
BciVI	GTATCC	1 cut(s)	151
BclI	TGATCA	1 cut(s)	60
BcoDI	GTCTC	1 cut(s)	396
BfaI	CTAG	1 cut(s)	123
BfmI	CTRYAG	1 cut(s)	410
BfuI	GTATCC	1 cut(s)	151
BisI	GCNGC	2 cut(s)	84, 354
BlsI	GCNGC	2 cut(s)	85, 355
Bme18I	GGWCC	1 cut(s)	311
BmgT120I	GGNCC	2 cut(s)	311, 346
BmiI	GGNNCC	3 cut(s)	201, 313, 348
BmsI	GCATC	2 cut(s)	175, 199
BpiI	GAAGAC	1 cut(s)	414
BpuEI	CTTGAG	2 cut(s)	98, 189
Bsc4I	CCNNNNNNNGG	1 cut(s)	384
BseLI	CCNNNNNNNGG	1 cut(s)	384
BseXI	GCAGC	2 cut(s)	95, 340
BshFI	GGCC	2 cut(s)	193, 347
BslI	CCNNNNNNNGG	1 cut(s)	384
BsmAI	GTCTC	1 cut(s)	396
BsmBI	CGTCTC	1 cut(s)	396
BsnI	GGCC	2 cut(s)	193, 347
Bsp143I	GATC	2 cut(s)	60, 90
BspACI	CCGC	1 cut(s)	197
BspANI	GGCC	2 cut(s)	193, 347
BspHI	TCATGA	1 cut(s)	231
BspLI	GGNNCC	3 cut(s)	201, 313, 348
BspPI	GGATC	1 cut(s)	98
BssMI	GATC	2 cut(s)	60, 90
Bst4CI	ACNGT	2 cut(s)	153, 294
BstC8I	GCNNGC	3 cut(s)	130, 195, 251
BstDEI	CTNAG	1 cut(s)	102
BstKTI	GATC	2 cut(s)	63, 93
BstMAI	GTCTC	1 cut(s)	396
BstMBI	GATC	2 cut(s)	60, 90
BstMWI	GCNNNNNNNGC	4 cut(s)	125, 194, 199, 353
BstSFI	CTRYAG	1 cut(s)	410
BstV1I	GCAGC	2 cut(s)	95, 340
BstV2I	GAAGAC	1 cut(s)	414
BsuI	GTATCC	1 cut(s)	151
BsuRI	GGCC	2 cut(s)	193, 347
BtsIMutI	CAGTG	1 cut(s)	378
Cac8I	GCNNGC	3 cut(s)	130, 195, 251
CciI	TCATGA	1 cut(s)	231
Cfr13I	GGNCC	2 cut(s)	311, 346
CviAII	CATG	1 cut(s)	232
CviJI	RGCY	9 cut(s)	66, 101, 171, 193, 202, 219, 229, 347, 409
CviKI_1	RGCY	9 cut(s)	66, 101, 171, 193, 202, 219, 229, 347, 409
DdeI	CTNAG	1 cut(s)	102
DpnI	GATC	2 cut(s)	62, 92
DpnII	GATC	2 cut(s)	60, 90
DraI	TTTAAA	1 cut(s)	148
Eco47I	GGWCC	1 cut(s)	311
Eco57I	CTGAAG	1 cut(s)	258
EcoO109I	RGGNCCY	1 cut(s)	346
Esp3I	CGTCTC	1 cut(s)	396
FaeI	CATG	1 cut(s)	235
FaiI	YATR	9 cut(s)	11, 44, 48, 74, 117, 216, 233, 247, 309
FalI	AAGNNNNNCTT	2 cut(s)	95, 127
FatI	CATG	1 cut(s)	231
FbaI	TGATCA	1 cut(s)	60
Fnu4HI	GCNGC	2 cut(s)	84, 354
Fsp4HI	GCNGC	2 cut(s)	84, 354
FspBI	CTAG	1 cut(s)	123
GluI	GCNGC	2 cut(s)	84, 354
HaeIII	GGCC	2 cut(s)	193, 347
Hin1II	CATG	1 cut(s)	235
HinfI	GANTC	2 cut(s)	179, 415
Hpy188I	TCNGA	2 cut(s)	184, 285
Hpy188III	TCNNGA	2 cut(s)	206, 232
HpyAV	CCTTC	3 cut(s)	169, 325, 337
HpyCH4III	ACNGT	2 cut(s)	153, 294
HpyCH4V	TGCA	2 cut(s)	132, 249
HpyF10VI	GCNNNNNNNGC	4 cut(s)	125, 194, 199, 353
HpyF3I	CTNAG	1 cut(s)	102
Hsp92II	CATG	1 cut(s)	235
Ksp22I	TGATCA	1 cut(s)	60
Kzo9I	GATC	2 cut(s)	60, 90
LmnI	GCTCC	2 cut(s)	98, 199
LpnPI	CCDG	3 cut(s)	153, 207, 363
Lsp1109I	GCAGC	2 cut(s)	95, 340
LweI	GCATC	2 cut(s)	175, 199
MaeI	CTAG	1 cut(s)	123
MalI	GATC	2 cut(s)	62, 92
MboI	GATC	2 cut(s)	60, 90
MboII	GAAGA	2 cut(s)	251, 414
MluCI	AATT	3 cut(s)	143, 242, 368
MlyI	GAGTC	2 cut(s)	188, 409
MmeI	TCCRAC	3 cut(s)	51, 135, 263
MnlI	CCTC	4 cut(s)	73, 99, 130, 213
MseI	TTAA	3 cut(s)	69, 147, 258
MwoI	GCNNNNNNNGC	4 cut(s)	125, 194, 199, 353
NdeII	GATC	2 cut(s)	60, 90
NlaIII	CATG	1 cut(s)	235
NlaIV	GGNNCC	3 cut(s)	201, 313, 348
PagI	TCATGA	1 cut(s)	231
PflFI	GACNNNGTC	1 cut(s)	418
PkrI	GCNGC	2 cut(s)	85, 355
PleI	GAGTC	2 cut(s)	187, 409
PpsI	GAGTC	2 cut(s)	187, 409
PspN4I	GGNNCC	3 cut(s)	201, 313, 348
PspPI	GGNCC	2 cut(s)	311, 346
PsyI	GACNNNGTC	1 cut(s)	418
SaqAI	TTAA	3 cut(s)	69, 147, 258
SatI	GCNGC	2 cut(s)	84, 354
Sau3AI	GATC	2 cut(s)	60, 90
Sau96I	GGNCC	2 cut(s)	311, 346
SchI	GAGTC	2 cut(s)	188, 409
SetI	ASST	8 cut(s)	10, 68, 103, 110, 173, 231, 334, 389
SfaNI	GCATC	2 cut(s)	175, 199
SfcI	CTRYAG	1 cut(s)	410
SinI	GGWCC	1 cut(s)	311
SmlI	CTYRAG	2 cut(s)	77, 204
SmoI	CTYRAG	2 cut(s)	77, 204
Sse9I	AATT	3 cut(s)	143, 242, 368
SsiI	CCGC	1 cut(s)	197
SspMI	CTAG	1 cut(s)	123
TaaI	ACNGT	2 cut(s)	153, 294
TaqII	GACCGA	1 cut(s)	408
TasI	AATT	3 cut(s)	143, 242, 368
Tru1I	TTAA	3 cut(s)	69, 147, 258
Tru9I	TTAA	3 cut(s)	69, 147, 258
TscAI	CASTG	1 cut(s)	385
TseI	GCWGC	2 cut(s)	83, 353
TspDTI	ATGAA	1 cut(s)	7
TspGWI	ACGGA	1 cut(s)	25
TspRI	CASTG	1 cut(s)	385
Tth111I	GACNNNGTC	1 cut(s)	418
VpaK11BI	GGWCC	1 cut(s)	311
XapI	RAATTY	2 cut(s)	143, 368
XspI	CTAG	1 cut(s)	123

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