Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0001892

Physical Location & Seq

Genomic Coordinates Forward (+)

20626330 .. 20629206

Gene Structure 2877 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG123100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 711 bp

ATGAAGTACGACAAACCCACAGTTTGTGTTCTTGATGCTTCAACCTACGTTGGCTTTTGGATTCTCAAAGGATTACTTGCTCGAGGCTTCAGAGTTCACGCAGCTACCCAGAAGAATGGGGAAACAGAGATTCAGAAGAGAATTAGGGAAATGGAGAAGGAAGAAGAGAGATTAGTAGTTTTCTCTGTTGATGTTTTGGATTATCATAGCATTCTTTTGGCTTTGAAAGGTTGCTCTGCTGTGTTCTGTTGTCTAGACAGTCCAGAAGCATATGATGAAAAAATGGTGAATTTGGAGGTGAGAGGAGCAATCAATGTTGTTGAAGCATGTTCTCAGACAGAGAGCGTGGAGAAGATTTTGTTCTCTTCTTCATTGGCTGCAGCAATATGGAAGGAGGACATTTCATCACAGAAGGATGTGGATGAAAAGTCATGGAGTGATACAGAATTCTGCAGGAAATTGAAGTTGTGGTATGCCTTAGCAAAGACACAATCGGAACAGGCTGCTTGGGCTCTATCAATGGACCGGACTCTTAAGATGGTCTCTATAAATTCTGGACTAGTCCTTGGGCCTAGTGTCACACAACAAAATCCGCGAACAACCATGTCATATCTTAACGGTTGGTATAGTTTAAAAATAATCTTGTTGCAAAATAGTTTGGCATGTTATTTTATCAAACCAATCCACGTACAAAAAGTGTTCTTGAGATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00940 ko01100 ko01110 map00940 map01100 map01110

Pfam Domains

Protein Families

3Beta_HSD Epimerase NAD_binding_10

Protein Analysis

236

Amino Acids

26.78

Weight (kDa)

7.54

Isoelectric Point (pI)

38.17

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
3Beta_HSD	PF01073	11 - 169	1.6e-07	3-beta hydroxysteroid dehydrogenase/isomerase family
Epimerase	PF01370	13 - 202	1.8e-09	NAD dependent epimerase/dehydratase family
NAD_binding_10	PF13460	17 - 128	1.5e-08	NAD(P)H-binding

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: OG0001892)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G23910 AT2G23910 AT2G23910 AT2G23910 AT4G30470
fragaria_vesca	FvH4_5g22420 FvH4_5g22420 FvH4_5g22420
malus_domestica	MD00G1072500.v1.1 MD01G1237600.v1.1 MD06G1036600.v1.1 MD07G1310200.v1.1
prunus_persica	Prupe.1G099500_v2.0.a1 Prupe.1G099500_v2.0.a1 Prupe.1G099500_v2.0.a1 Prupe.1G099500_v2.0.a1 Prupe.5G032800_v2.0.a1
pyrus_communis	pycom01g24530 pycom06g03000 pycom13g28670
rosa_chinensis	RchiOBHm_Chr4g0405161 RchiOBHm_Chr7g0210161
rosa_laevigata	RLG00000003059 RLG00000008867
rosa_multiflora	Rmu_sc0005438.1_g000001 Rmu_sc0006908.1_g000015 Rmu_ssc0000255.1_g000034
rosa_roxburghii	Rroxscaffold_3G00248570 Rroxscaffold_5G00349400
rosa_rugosa	Rorug04G0054400 Rorug04G0054500 Rorug04G0054600 Rorug07G0119000
rosa_samantha	Rh1AG349400 Rh4AG129400 Rh4BG123100 Rh4CG136700 Rh4DG122900 Rh7AG252500 Rh7BG247600 Rh7CG269500 Rh7DG260100
rosa_wichuraiana	Rw0G002460 Rw1G031120 Rw4G010450 Rw7G021460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	595
AciI	CCGC	1 cut(s)	593
AcsI	RAATTY	3 cut(s)	289, 446, 550
AcuI	CTGAAG	1 cut(s)	73
AfaI	GTAC	2 cut(s)	8, 690
AflII	CTTAAG	1 cut(s)	533
AgsI	TTSAA	4 cut(s)	42, 226, 323, 463
AhlI	ACTAGT	1 cut(s)	559
AluBI	AGCT	1 cut(s)	104
AluI	AGCT	1 cut(s)	104
Alw26I	GTCTC	1 cut(s)	547
Ama87I	CYCGRG	1 cut(s)	81
AoxI	GGCC	1 cut(s)	569
ApeKI	GCWGC	4 cut(s)	101, 377, 380, 503
ApoI	RAATTY	3 cut(s)	289, 446, 550
AspS9I	GGNCC	2 cut(s)	523, 569
AsuHPI	GGTGA	2 cut(s)	298, 310
AvaI	CYCGRG	1 cut(s)	81
AvaII	GGWCC	1 cut(s)	523
BanII	GRGCYC	1 cut(s)	514
BbvI	GCAGC	4 cut(s)	113, 364, 392, 490
BccI	CCATC	1 cut(s)	532
BcoDI	GTCTC	1 cut(s)	547
BcuI	ACTAGT	1 cut(s)	559
BfaI	CTAG	3 cut(s)	254, 560, 573
BfmI	CTRYAG	2 cut(s)	378, 451
BfrI	CTTAAG	1 cut(s)	533
BisI	GCNGC	4 cut(s)	102, 378, 381, 504
BlsI	GCNGC	4 cut(s)	103, 379, 382, 505
Bme18I	GGWCC	1 cut(s)	523
BmeT110I	CYCGRG	1 cut(s)	81
BmgT120I	GGNCC	2 cut(s)	523, 569
BmsI	GCATC	1 cut(s)	25
Bpu10I	CCTNAGC	1 cut(s)	478
BsaAI	YACGTR	1 cut(s)	688
BsaI	GGTCTC	1 cut(s)	547
BsaJI	CCNNGG	1 cut(s)	565
BsaWI	WCCGGW	1 cut(s)	525
BseDI	CCNNGG	1 cut(s)	565
BseGI	GGATG	2 cut(s)	421, 427
BseMII	CTCAG	1 cut(s)	347
BseRI	GAGGAG	1 cut(s)	318
BseXI	GCAGC	4 cut(s)	113, 364, 392, 490
Bsh1236I	CGCG	1 cut(s)	595
BshFI	GGCC	1 cut(s)	571
BsiHKCI	CYCGRG	1 cut(s)	81
BsiSI	CCGG	1 cut(s)	526
BsmAI	GTCTC	1 cut(s)	547
BsmI	GAATGC	1 cut(s)	210
BsnI	GGCC	1 cut(s)	571
Bso31I	GGTCTC	1 cut(s)	547
BsoBI	CYCGRG	1 cut(s)	81
Bsp1286I	GDGCHC	1 cut(s)	514
BspACI	CCGC	1 cut(s)	593
BspANI	GGCC	1 cut(s)	571
BspCNI	CTCAG	1 cut(s)	346
BspFNI	CGCG	1 cut(s)	595
BspMAI	CTGCAG	2 cut(s)	382, 455
BspTI	CTTAAG	1 cut(s)	533
BspTNI	GGTCTC	1 cut(s)	547
BssECI	CCNNGG	1 cut(s)	565
BssT1I	CCWWGG	1 cut(s)	565
Bst4CI	ACNGT	3 cut(s)	22, 260, 620
Bst6I	CTCTTC	3 cut(s)	131, 159, 370
BstAFI	CTTAAG	1 cut(s)	533
BstBAI	YACGTR	1 cut(s)	688
BstDEI	CTNAG	2 cut(s)	333, 478
BstF5I	GGATG	2 cut(s)	421, 427
BstFNI	CGCG	1 cut(s)	595
BstMAI	GTCTC	1 cut(s)	547
BstMWI	GCNNNNNNNGC	1 cut(s)	509
BstNSI	RCATGY	2 cut(s)	330, 666
BstSFI	CTRYAG	2 cut(s)	378, 451
BstUI	CGCG	1 cut(s)	595
BstV1I	GCAGC	4 cut(s)	113, 364, 392, 490
BstXI	CCANNNNNNTGG	1 cut(s)	116
BsuRI	GGCC	1 cut(s)	571
BtsCI	GGATG	2 cut(s)	421, 427
Cfr13I	GGNCC	2 cut(s)	523, 569
Csp6I	GTAC	2 cut(s)	7, 689
CviAII	CATG	4 cut(s)	327, 432, 604, 663
CviJI	RGCY	8 cut(s)	54, 87, 104, 221, 377, 503, 512, 571
CviKI_1	RGCY	8 cut(s)	54, 87, 104, 221, 377, 503, 512, 571
CviQI	GTAC	2 cut(s)	7, 689
DdeI	CTNAG	2 cut(s)	333, 478
DraI	TTTAAA	1 cut(s)	633
Eam1104I	CTCTTC	3 cut(s)	131, 159, 370
EarI	CTCTTC	3 cut(s)	131, 159, 370
Eco130I	CCWWGG	1 cut(s)	565
Eco24I	GRGCYC	1 cut(s)	514
Eco31I	GGTCTC	1 cut(s)	547
Eco47I	GGWCC	1 cut(s)	523
Eco57I	CTGAAG	1 cut(s)	73
Eco88I	CYCGRG	1 cut(s)	81
EcoRI	GAATTC	1 cut(s)	446
EcoT14I	CCWWGG	1 cut(s)	565
EcoT38I	GRGCYC	1 cut(s)	514
ErhI	CCWWGG	1 cut(s)	565
FaeI	CATG	4 cut(s)	330, 435, 607, 666
FalI	AAGNNNNNCTT	2 cut(s)	60, 92
FatI	CATG	4 cut(s)	326, 431, 603, 662
FauNDI	CATATG	1 cut(s)	271
Fnu4HI	GCNGC	4 cut(s)	102, 378, 381, 504
FokI	GGATG	2 cut(s)	428, 434
FriOI	GRGCYC	1 cut(s)	514
Fsp4HI	GCNGC	4 cut(s)	102, 378, 381, 504
FspBI	CTAG	3 cut(s)	254, 560, 573
GluI	GCNGC	4 cut(s)	102, 378, 381, 504
HaeIII	GGCC	1 cut(s)	571
HapII	CCGG	1 cut(s)	526
Hin1II	CATG	4 cut(s)	330, 435, 607, 666
HinfI	GANTC	3 cut(s)	61, 130, 529
HpaII	CCGG	1 cut(s)	526
HphI	GGTGA	2 cut(s)	298, 310
Hpy166II	GTNNAC	1 cut(s)	97
Hpy188I	TCNGA	4 cut(s)	92, 135, 336, 496
Hpy188III	TCNNGA	5 cut(s)	32, 254, 263, 555, 703
Hpy8I	GTNNAC	1 cut(s)	97
HpyAV	CCTTC	3 cut(s)	151, 385, 406
HpyCH4III	ACNGT	3 cut(s)	22, 260, 620
HpyCH4IV	ACGT	2 cut(s)	48, 687
HpyCH4V	TGCA	3 cut(s)	380, 453, 649
HpyF10VI	GCNNNNNNNGC	1 cut(s)	509
HpyF3I	CTNAG	2 cut(s)	333, 478
HpySE526I	ACGT	2 cut(s)	48, 687
Hsp92II	CATG	4 cut(s)	330, 435, 607, 666
LmnI	GCTCC	1 cut(s)	305
LpnPI	CCDG	6 cut(s)	122, 276, 439, 485, 539, 540
Lsp1109I	GCAGC	4 cut(s)	113, 364, 392, 490
LweI	GCATC	1 cut(s)	25
MaeI	CTAG	3 cut(s)	254, 560, 573
MaeII	ACGT	2 cut(s)	48, 687
MaeIII	GTNAC	1 cut(s)	577
MboII	GAAGA	7 cut(s)	124, 148, 173, 176, 357, 360, 364
MhlI	GDGCHC	1 cut(s)	514
MluCI	AATT	5 cut(s)	141, 289, 446, 458, 550
MlyI	GAGTC	1 cut(s)	523
MnlI	CCTC	4 cut(s)	77, 289, 296, 388
MseI	TTAA	3 cut(s)	534, 615, 632
MspCI	CTTAAG	1 cut(s)	533
MspI	CCGG	1 cut(s)	526
Mva1269I	GAATGC	1 cut(s)	210
MvnI	CGCG	1 cut(s)	595
MwoI	GCNNNNNNNGC	1 cut(s)	509
NdeI	CATATG	1 cut(s)	271
NlaIII	CATG	4 cut(s)	330, 435, 607, 666
NmuCI	GTSAC	1 cut(s)	577
NspI	RCATGY	2 cut(s)	330, 666
PaeR7I	CTCGAG	1 cut(s)	81
PctI	GAATGC	1 cut(s)	210
PfeI	GAWTC	2 cut(s)	61, 130
PkrI	GCNGC	4 cut(s)	103, 379, 382, 505
PleI	GAGTC	1 cut(s)	523
PpsI	GAGTC	1 cut(s)	523
Ppu21I	YACGTR	1 cut(s)	688
PspPI	GGNCC	2 cut(s)	523, 569
PspXI	VCTCGAGB	1 cut(s)	81
PstI	CTGCAG	2 cut(s)	382, 455
RsaI	GTAC	2 cut(s)	8, 690
RsaNI	GTAC	2 cut(s)	7, 689
SaqAI	TTAA	3 cut(s)	534, 615, 632
SatI	GCNGC	4 cut(s)	102, 378, 381, 504
Sau96I	GGNCC	2 cut(s)	523, 569
SchI	GAGTC	1 cut(s)	523
SduI	GDGCHC	1 cut(s)	514
SetI	ASST	6 cut(s)	47, 51, 106, 232, 300, 690
SfaNI	GCATC	1 cut(s)	25
SfcI	CTRYAG	2 cut(s)	378, 451
Sfr274I	CTCGAG	1 cut(s)	81
SinI	GGWCC	1 cut(s)	523
SlaI	CTCGAG	1 cut(s)	81
SmlI	CTYRAG	3 cut(s)	81, 533, 703
SmoI	CTYRAG	3 cut(s)	81, 533, 703
SpeI	ACTAGT	1 cut(s)	559
Sse9I	AATT	5 cut(s)	141, 289, 446, 458, 550
SsiI	CCGC	1 cut(s)	593
SspMI	CTAG	3 cut(s)	254, 560, 573
StyI	CCWWGG	1 cut(s)	565
TaaI	ACNGT	3 cut(s)	22, 260, 620
TaiI	ACGT	2 cut(s)	51, 690
TaqI	TCGA	1 cut(s)	82
TasI	AATT	5 cut(s)	141, 289, 446, 458, 550
TfiI	GAWTC	2 cut(s)	61, 130
Tru1I	TTAA	3 cut(s)	534, 615, 632
Tru9I	TTAA	3 cut(s)	534, 615, 632
TseFI	GTSAC	1 cut(s)	577
TseI	GCWGC	4 cut(s)	101, 377, 380, 503
Tsp45I	GTSAC	1 cut(s)	577
TspDTI	ATGAA	5 cut(s)	17, 291, 360, 393, 438
Vha464I	CTTAAG	1 cut(s)	533
VpaK11BI	GGWCC	1 cut(s)	523
XapI	RAATTY	3 cut(s)	289, 446, 550
XbaI	TCTAGA	1 cut(s)	253
XceI	RCATGY	2 cut(s)	330, 666
XhoI	CTCGAG	1 cut(s)	81
XspI	CTAG	3 cut(s)	254, 560, 573

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