Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0001892

Physical Location & Seq

Genomic Coordinates Forward (+)

19765871 .. 19791050

Gene Structure 25180 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG122900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 906 bp

ATGAAGTACGACAAACCCACAGTTTGTGTTCTTGATGCTTCAACCTACGTTGGCTTTTGGATTCTCAAAGGATTACTTGCTCGAGGCTTCAGAGTTCACGCAGCTACCCAGAAGAATGGGGAAACAGAGATTCAGAAGAGAATTAGGGAAATGGAGAAAGAAGAAGAGAGATTAGTAGTTTTCTCTGTTGATGTTTTGGATTATCATAGCATTCTTTTGGCTTTGAAAGGTTGCTCTGCTGTGTTCTGTTGTCTAGACAGTCCAGAAGCATACGATGAAAAAATGGTGAATTTGGAGGTGAGAGGAGCAATCAATGTTGTTGAAGCATGTGCTCAGACAGACAGCGTGGAGAAGATTTTGTTCTCTTCTTCATTGGCTGCAGCAATATGGAAGGAGGACATTTCTTCTGAGAAGGATGTGGATGAAAAGTCATGGAGTGATCCAGAATTCTGCACGAAATTGAAGTTGTGGTATGCCTTAGCAAAGACACAATCGGAACAGGCTGCTTGGGCTCTATCAATGGACCGGACTCTTAAGATGGTCTCTATAAATTCTGGACTAGTCCTTGGGCCTAGTGTCACACAACAAAATCCGCAAACAACCATGTCATATCTTAACGGAGCTGCTCAAATGTATGAAAATGGTGTACTAGCATTTGTCGACGTGGACTTTCTTGTAAATGTTCATATTCGAGCTCTAGAGGACCAGTCTGCTTGCGGGAGATATTTCTGCTTTAGTCACATAGTGAATACTGAGGACGAAGCTGTTAAGCTTGCACAGAGCTTGAGTCCTTTAATATCTTTACCACCAAGGTATCATTACGAAGGGAGTGAGGCACATATCGAGCGATTGAGGACTAAGAAGTTGAGCAAGCTGTCAGATAAAGTGTCGACCAGGGAGACCTAG

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

301

Amino Acids

33.78

Weight (kDa)

5.4

Isoelectric Point (pI)

43.14

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
3Beta_HSD	PF01073	11 - 230	1.6e-07	3-beta hydroxysteroid dehydrogenase/isomerase family
Epimerase	PF01370	13 - 232	1.1e-09	NAD dependent epimerase/dehydratase family
NAD_binding_10	PF13460	17 - 128	3.3e-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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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AccI	GTMKAC	2 cut(s)	660, 890
AciI	CCGC	2 cut(s)	593, 717
AclWI	GGATC	1 cut(s)	434
AcsI	RAATTY	3 cut(s)	289, 446, 550
AcuI	CTGAAG	1 cut(s)	73
AdeI	CACNNNGTG	1 cut(s)	745
AfaI	GTAC	2 cut(s)	8, 648
AflII	CTTAAG	1 cut(s)	533
AgsI	TTSAA	4 cut(s)	42, 226, 323, 463
AhlI	ACTAGT	1 cut(s)	559
AjiI	CACGTC	1 cut(s)	664
AjnI	CCWGG	1 cut(s)	893
AluBI	AGCT	7 cut(s)	104, 623, 695, 764, 772, 783, 874
AluI	AGCT	7 cut(s)	104, 623, 695, 764, 772, 783, 874
Alw21I	GWGCWC	2 cut(s)	334, 697
Alw26I	GTCTC	2 cut(s)	547, 893
AlwI	GGATC	1 cut(s)	434
Ama87I	CYCGRG	1 cut(s)	81
AoxI	GGCC	1 cut(s)	569
ApeKI	GCWGC	5 cut(s)	101, 377, 380, 503, 623
ApoI	RAATTY	3 cut(s)	289, 446, 550
AspS9I	GGNCC	3 cut(s)	523, 569, 703
AsuHPI	GGTGA	2 cut(s)	298, 310
AvaI	CYCGRG	1 cut(s)	81
AvaII	GGWCC	2 cut(s)	523, 703
BaeI	ACNNNNGTAYC	2 cut(s)	797, 830
BanII	GRGCYC	2 cut(s)	514, 697
Bbv12I	GWGCWC	2 cut(s)	334, 697
BbvI	GCAGC	5 cut(s)	113, 364, 392, 490, 610
BccI	CCATC	1 cut(s)	532
BciT130I	CCWGG	1 cut(s)	895
BcoDI	GTCTC	2 cut(s)	547, 893
BcuI	ACTAGT	1 cut(s)	559
BfaI	CTAG	6 cut(s)	254, 560, 573, 650, 698, 904
BfmI	CTRYAG	1 cut(s)	378
BfrI	CTTAAG	1 cut(s)	533
BisI	GCNGC	5 cut(s)	102, 378, 381, 504, 624
BlsI	GCNGC	5 cut(s)	103, 379, 382, 505, 625
Bme1390I	CCNGG	1 cut(s)	895
Bme18I	GGWCC	2 cut(s)	523, 703
BmeT110I	CYCGRG	1 cut(s)	81
BmgBI	CACGTC	1 cut(s)	664
BmgT120I	GGNCC	3 cut(s)	523, 569, 703
BmrFI	CCNGG	1 cut(s)	895
BmsI	GCATC	1 cut(s)	25
Bpu10I	CCTNAGC	1 cut(s)	478
BpuEI	CTTGAG	1 cut(s)	805
BsaI	GGTCTC	2 cut(s)	547, 893
BsaJI	CCNNGG	3 cut(s)	565, 809, 894
BsaWI	WCCGGW	1 cut(s)	525
Bse1I	ACTGG	1 cut(s)	706
BseBI	CCWGG	1 cut(s)	895
BseDI	CCNNGG	3 cut(s)	565, 809, 894
BseGI	GGATG	2 cut(s)	421, 427
BseMII	CTCAG	3 cut(s)	347, 399, 744
BseNI	ACTGG	1 cut(s)	706
BseRI	GAGGAG	1 cut(s)	318
BseXI	GCAGC	5 cut(s)	113, 364, 392, 490, 610
BsgI	GTGCAG	1 cut(s)	436
BshFI	GGCC	1 cut(s)	571
BsiHKAI	GWGCWC	2 cut(s)	334, 697
BsiHKCI	CYCGRG	1 cut(s)	81
BsiSI	CCGG	1 cut(s)	526
BsmAI	GTCTC	2 cut(s)	547, 893
BsmI	GAATGC	1 cut(s)	210
BsnI	GGCC	1 cut(s)	571
Bso31I	GGTCTC	2 cut(s)	547, 893
BsoBI	CYCGRG	1 cut(s)	81
Bsp1286I	GDGCHC	3 cut(s)	334, 514, 697
Bsp143I	GATC	1 cut(s)	439
BspACI	CCGC	2 cut(s)	593, 717
BspANI	GGCC	1 cut(s)	571
BspCNI	CTCAG	3 cut(s)	346, 400, 745
BspMAI	CTGCAG	1 cut(s)	382
BspPI	GGATC	1 cut(s)	434
BspTI	CTTAAG	1 cut(s)	533
BspTNI	GGTCTC	2 cut(s)	547, 893
BsrI	ACTGG	1 cut(s)	706
BssECI	CCNNGG	3 cut(s)	565, 809, 894
BssMI	GATC	1 cut(s)	439
BssT1I	CCWWGG	2 cut(s)	565, 809
Bst2UI	CCWGG	1 cut(s)	895
Bst4CI	ACNGT	2 cut(s)	22, 260
Bst6I	CTCTTC	3 cut(s)	131, 159, 370
BstAFI	CTTAAG	1 cut(s)	533
BstC8I	GCNNGC	3 cut(s)	715, 774, 872
BstDEI	CTNAG	5 cut(s)	333, 408, 478, 753, 858
BstF5I	GGATG	2 cut(s)	421, 427
BstKTI	GATC	1 cut(s)	442
BstMAI	GTCTC	2 cut(s)	547, 893
BstMBI	GATC	1 cut(s)	439
BstMWI	GCNNNNNNNGC	1 cut(s)	509
BstNI	CCWGG	1 cut(s)	895
BstNSI	RCATGY	1 cut(s)	330
BstSCI	CCNGG	1 cut(s)	893
BstSFI	CTRYAG	1 cut(s)	378
BstV1I	GCAGC	5 cut(s)	113, 364, 392, 490, 610
BstXI	CCANNNNNNTGG	1 cut(s)	116
BsuRI	GGCC	1 cut(s)	571
BtrI	CACGTC	1 cut(s)	664
BtsCI	GGATG	2 cut(s)	421, 427
Cac8I	GCNNGC	3 cut(s)	715, 774, 872
Cfr13I	GGNCC	3 cut(s)	523, 569, 703
Csp6I	GTAC	2 cut(s)	7, 647
CviAII	CATG	3 cut(s)	327, 432, 604
CviQI	GTAC	2 cut(s)	7, 647
DdeI	CTNAG	5 cut(s)	333, 408, 478, 753, 858
DpnI	GATC	1 cut(s)	441
DpnII	GATC	1 cut(s)	439
DraIII	CACNNNGTG	1 cut(s)	745
Eam1104I	CTCTTC	3 cut(s)	131, 159, 370
EarI	CTCTTC	3 cut(s)	131, 159, 370
Ecl136II	GAGCTC	1 cut(s)	695
Eco130I	CCWWGG	2 cut(s)	565, 809
Eco24I	GRGCYC	2 cut(s)	514, 697
Eco31I	GGTCTC	2 cut(s)	547, 893
Eco47I	GGWCC	2 cut(s)	523, 703
Eco53kI	GAGCTC	1 cut(s)	695
Eco57I	CTGAAG	1 cut(s)	73
Eco88I	CYCGRG	1 cut(s)	81
EcoICRI	GAGCTC	1 cut(s)	695
EcoRI	GAATTC	1 cut(s)	446
EcoRII	CCWGG	1 cut(s)	893
EcoT14I	CCWWGG	2 cut(s)	565, 809
EcoT38I	GRGCYC	2 cut(s)	514, 697
ErhI	CCWWGG	2 cut(s)	565, 809
FaeI	CATG	3 cut(s)	330, 435, 607
FalI	AAGNNNNNCTT	2 cut(s)	60, 92
FatI	CATG	3 cut(s)	326, 431, 603
FauI	CCCGC	1 cut(s)	710
FblI	GTMKAC	2 cut(s)	660, 890
Fnu4HI	GCNGC	5 cut(s)	102, 378, 381, 504, 624
FokI	GGATG	2 cut(s)	428, 434
FriOI	GRGCYC	2 cut(s)	514, 697
Fsp4HI	GCNGC	5 cut(s)	102, 378, 381, 504, 624
FspBI	CTAG	6 cut(s)	254, 560, 573, 650, 698, 904
GluI	GCNGC	5 cut(s)	102, 378, 381, 504, 624
HaeIII	GGCC	1 cut(s)	571
HapII	CCGG	1 cut(s)	526
Hin1II	CATG	3 cut(s)	330, 435, 607
HincII	GTYRAC	2 cut(s)	661, 891
HindII	GTYRAC	2 cut(s)	661, 891
HindIII	AAGCTT	1 cut(s)	770
HinfI	GANTC	4 cut(s)	61, 130, 529, 787
HpaII	CCGG	1 cut(s)	526
HphI	GGTGA	2 cut(s)	298, 310
Hpy166II	GTNNAC	5 cut(s)	97, 647, 661, 667, 891
Hpy188I	TCNGA	6 cut(s)	92, 135, 336, 409, 496, 880
Hpy188III	TCNNGA	6 cut(s)	32, 254, 263, 443, 555, 698
Hpy8I	GTNNAC	5 cut(s)	97, 647, 661, 667, 891
Hpy99I	CGWCG	1 cut(s)	665
HpyAV	CCTTC	3 cut(s)	385, 406, 818
HpyCH4III	ACNGT	2 cut(s)	22, 260
HpyCH4IV	ACGT	2 cut(s)	48, 663
HpyCH4V	TGCA	3 cut(s)	380, 453, 776
HpyF10VI	GCNNNNNNNGC	1 cut(s)	509
HpyF3I	CTNAG	5 cut(s)	333, 408, 478, 753, 858
HpySE526I	ACGT	2 cut(s)	48, 663
Hsp92II	CATG	3 cut(s)	330, 435, 607
Kzo9I	GATC	1 cut(s)	439
LmnI	GCTCC	2 cut(s)	305, 620
LpnPI	CCDG	8 cut(s)	122, 276, 456, 485, 539, 540, 719, 880
Lsp1109I	GCAGC	5 cut(s)	113, 364, 392, 490, 610
LweI	GCATC	1 cut(s)	25
MaeI	CTAG	6 cut(s)	254, 560, 573, 650, 698, 904
MaeII	ACGT	2 cut(s)	48, 663
MaeIII	GTNAC	2 cut(s)	577, 737
MalI	GATC	1 cut(s)	441
MboI	GATC	1 cut(s)	439
MboII	GAAGA	8 cut(s)	124, 148, 173, 176, 357, 360, 364, 396
MhlI	GDGCHC	3 cut(s)	334, 514, 697
MluCI	AATT	5 cut(s)	141, 289, 446, 458, 550
MlyI	GAGTC	2 cut(s)	523, 796
MnlI	CCTC	8 cut(s)	77, 289, 296, 388, 694, 748, 826, 846
MseI	TTAA	4 cut(s)	534, 615, 768, 794
MspCI	CTTAAG	1 cut(s)	533
MspI	CCGG	1 cut(s)	526
MspR9I	CCNGG	1 cut(s)	895
Mva1269I	GAATGC	1 cut(s)	210
MvaI	CCWGG	1 cut(s)	895
MwoI	GCNNNNNNNGC	1 cut(s)	509
NdeII	GATC	1 cut(s)	439
NlaIII	CATG	3 cut(s)	330, 435, 607
NmuCI	GTSAC	2 cut(s)	577, 737
NspI	RCATGY	1 cut(s)	330
PaeR7I	CTCGAG	1 cut(s)	81
PctI	GAATGC	1 cut(s)	210
PfeI	GAWTC	2 cut(s)	61, 130
PkrI	GCNGC	5 cut(s)	103, 379, 382, 505, 625
PleI	GAGTC	2 cut(s)	523, 795
PpsI	GAGTC	2 cut(s)	523, 795
Psp124BI	GAGCTC	1 cut(s)	697
Psp6I	CCWGG	1 cut(s)	893
PspGI	CCWGG	1 cut(s)	893
PspPI	GGNCC	3 cut(s)	523, 569, 703
PspXI	VCTCGAGB	1 cut(s)	81
PstI	CTGCAG	1 cut(s)	382
RsaI	GTAC	2 cut(s)	8, 648
RsaNI	GTAC	2 cut(s)	7, 647
SacI	GAGCTC	1 cut(s)	697
SalI	GTCGAC	2 cut(s)	659, 889
SaqAI	TTAA	4 cut(s)	534, 615, 768, 794
SatI	GCNGC	5 cut(s)	102, 378, 381, 504, 624
Sau3AI	GATC	1 cut(s)	439
Sau96I	GGNCC	3 cut(s)	523, 569, 703
SchI	GAGTC	2 cut(s)	523, 796
ScrFI	CCNGG	1 cut(s)	895
SduI	GDGCHC	3 cut(s)	334, 514, 697
SfaNI	GCATC	1 cut(s)	25
SfcI	CTRYAG	1 cut(s)	378
Sfr274I	CTCGAG	1 cut(s)	81
SinI	GGWCC	2 cut(s)	523, 703
SlaI	CTCGAG	1 cut(s)	81
SmlI	CTYRAG	3 cut(s)	81, 533, 784
SmoI	CTYRAG	3 cut(s)	81, 533, 784
SpeI	ACTAGT	1 cut(s)	559
Sse9I	AATT	5 cut(s)	141, 289, 446, 458, 550
SsiI	CCGC	2 cut(s)	593, 717
SspMI	CTAG	6 cut(s)	254, 560, 573, 650, 698, 904
SstI	GAGCTC	1 cut(s)	697
StyD4I	CCNGG	1 cut(s)	893
StyI	CCWWGG	2 cut(s)	565, 809
TaaI	ACNGT	2 cut(s)	22, 260
TaiI	ACGT	2 cut(s)	51, 666
TaqI	TCGA	5 cut(s)	82, 660, 691, 843, 890
TasI	AATT	5 cut(s)	141, 289, 446, 458, 550
TatI	WGTACW	1 cut(s)	646
TfiI	GAWTC	2 cut(s)	61, 130
Tru1I	TTAA	4 cut(s)	534, 615, 768, 794
Tru9I	TTAA	4 cut(s)	534, 615, 768, 794
TseFI	GTSAC	2 cut(s)	577, 737
TseI	GCWGC	5 cut(s)	101, 377, 380, 503, 623
Tsp45I	GTSAC	2 cut(s)	577, 737
TspDTI	ATGAA	6 cut(s)	17, 291, 360, 438, 651, 674
TspGWI	ACGGA	1 cut(s)	633
Vha464I	CTTAAG	1 cut(s)	533
VpaK11BI	GGWCC	2 cut(s)	523, 703
XapI	RAATTY	3 cut(s)	289, 446, 550
XbaI	TCTAGA	2 cut(s)	253, 697
XceI	RCATGY	1 cut(s)	330
XhoI	CTCGAG	1 cut(s)	81
XmiI	GTMKAC	2 cut(s)	660, 890
XspI	CTAG	6 cut(s)	254, 560, 573, 650, 698, 904

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