Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0008036

Physical Location & Seq

Genomic Coordinates Forward (+)

56460185 .. 56463664

Gene Structure 3480 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG341800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 690 bp

ATGTGGCAGGCGACTTTGATCGATCCTTGTATAAAGGGCACCTTGAATGTGCTGAGTTCCTGTTCGAAGGCACGCGTGAAAAGGGTTGTGCTCACATCTTCTTGTTCTTCAATAAGATACCGTTACGATGCCCAACAGGCCTCTCCTCTCAATGACTCACATTGGAGCGATCCTGAATACTGCAAACGCTTCAATCTTTGGTATGCCTATGCAAAGACAACAGCGGAAAAAGAGGCGTGGAGAATCGCAGAGGAGAGTGGAATGGATCTAGTGGTGGTGAATCCGTCTTTCGTGGTTGGTCCTCTGCTAGCACCACAACCTTCAAGCACAATACTGATGATACTGGCAATACTTAAAGGTTTAAGAGGGGAATACCCAAATACAACAGTAGGATTTGTGCACATAGATGATGTGGTAGCTACACACATTCTGGCAATGGAGGAAAGAAAAGCATCAGGCAGGCTTATATGTTCAAGTTCGGTAGCGCACTGGTCGCAGATCATTGAGATGCTCAAAGCCAAATATCCATCTTATTCATATGAAAGCAAGTGTAGCAGCAAGGAAGGAGACAATAACCCACATAGCATGGACACCACTAAAATTGCTCAACTGGGTTTTCCTCCTTTCAAAACGCTCGAAAAAATGTTTGATGACTGCATCACAAGTTTTCAAGAGAAAGGGTTTCTGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006725 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009555 GO:0009653 GO:0009987 GO:0010208 GO:0010584 GO:0010927 GO:0016043 GO:0019438 GO:0022607 GO:0030198 GO:0032501 GO:0032502 GO:0032989 GO:0043062 GO:0044085 GO:0044237 GO:0044249 GO:0044424 GO:0044444 GO:0044464 GO:0045229 GO:0048229 GO:0048646 GO:0048856 GO:0048869 GO:0071840 GO:0080110 GO:0085029

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Epimerase

Protein Analysis

229

Amino Acids

25.66

Weight (kDa)

7.57

Isoelectric Point (pI)

47.67

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NAD_binding_4	PF07993	5 - 108	4.7e-06	Male sterility protein
Epimerase	PF01370	10 - 151	3.1e-14	NAD dependent epimerase/dehydratase family
3Beta_HSD	PF01073	10 - 147	1.4e-06	3-beta hydroxysteroid dehydrogenase/isomerase family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0008036)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G25460 AT1G68540 AT1G68540
fragaria_vesca	FvH4_4g27430 FvH4_4g27430
malus_domestica	MD13G1042500.v1.1 MD16G1043400.v1.1
prunus_persica	Prupe.1G310300_v2.0.a1
pyrus_communis	pycom13g03700 pycom13g03710 pycom13g03720 pycom16g03750
rosa_chinensis	RchiOBHm_Chr4g0435251
rosa_laevigata	RLG00000006604
rosa_multiflora	Rmu_sc0002132.1_g000069
rosa_roxburghii	Rroxscaffold_5G00376540
rosa_rugosa	Rorug04G0284000 Rorug04G0284100
rosa_samantha	Rh4AG339300 Rh4BG347700 Rh4CG362300 Rh4CG362400 Rh4DG341800
rosa_wichuraiana	Rw4G029600

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	38
AccII	CGCG	1 cut(s)	75
AciI	CCGC	1 cut(s)	224
AclWI	GGATC	3 cut(s)	17, 164, 273
AflIII	ACRYGT	1 cut(s)	73
AgsI	TTSAA	7 cut(s)	46, 111, 193, 324, 474, 628, 671
AluBI	AGCT	1 cut(s)	419
AluI	AGCT	1 cut(s)	419
Alw21I	GWGCWC	2 cut(s)	93, 402
Alw26I	GTCTC	1 cut(s)	561
Alw44I	GTGCAC	1 cut(s)	398
AlwI	GGATC	3 cut(s)	17, 164, 273
AoxI	GGCC	1 cut(s)	138
ApaLI	GTGCAC	1 cut(s)	398
ApeKI	GCWGC	1 cut(s)	555
AspLEI	GCGC	1 cut(s)	487
AspS9I	GGNCC	1 cut(s)	299
AsuHPI	GGTGA	1 cut(s)	289
AsuII	TTCGAA	1 cut(s)	65
AsuNHI	GCTAGC	1 cut(s)	307
AvaII	GGWCC	1 cut(s)	299
BaeGI	GKGCMC	2 cut(s)	41, 402
BanI	GGYRCC	1 cut(s)	38
Bbv12I	GWGCWC	2 cut(s)	93, 402
BbvI	GCAGC	1 cut(s)	567
BccI	CCATC	1 cut(s)	535
BcoDI	GTCTC	1 cut(s)	561
BfaI	CTAG	2 cut(s)	269, 308
BglI	GCCNNNNNGGC	1 cut(s)	137
BisI	GCNGC	1 cut(s)	556
BlsI	GCNGC	1 cut(s)	557
Bme18I	GGWCC	1 cut(s)	299
BmgT120I	GGNCC	1 cut(s)	299
BmiI	GGNNCC	1 cut(s)	40
BmrI	ACTGGG	1 cut(s)	620
BmsI	GCATC	4 cut(s)	118, 461, 498, 666
BmtI	GCTAGC	1 cut(s)	311
BmuI	ACTGGG	1 cut(s)	620
Bpu14I	TTCGAA	1 cut(s)	65
Bsa29I	ATCGAT	1 cut(s)	21
Bse1I	ACTGG	3 cut(s)	348, 494, 615
Bse3DI	GCAATG	1 cut(s)	441
BseCI	ATCGAT	1 cut(s)	21
BseMI	GCAATG	1 cut(s)	441
BseMII	CTCAG	1 cut(s)	44
BseNI	ACTGG	3 cut(s)	348, 494, 615
BseRI	GAGGAG	2 cut(s)	135, 266
BseSI	GKGCMC	2 cut(s)	41, 402
BseXI	GCAGC	1 cut(s)	567
Bsh1236I	CGCG	1 cut(s)	75
BshFI	GGCC	1 cut(s)	140
BshNI	GGYRCC	1 cut(s)	38
BshVI	ATCGAT	1 cut(s)	21
BsiHKAI	GWGCWC	2 cut(s)	93, 402
BsmAI	GTCTC	1 cut(s)	561
BsnI	GGCC	1 cut(s)	140
Bsp119I	TTCGAA	1 cut(s)	65
Bsp1286I	GDGCHC	3 cut(s)	41, 93, 402
Bsp143I	GATC	5 cut(s)	18, 22, 169, 265, 498
BspACI	CCGC	1 cut(s)	224
BspANI	GGCC	1 cut(s)	140
BspCNI	CTCAG	1 cut(s)	45
BspDI	ATCGAT	1 cut(s)	21
BspFNI	CGCG	1 cut(s)	75
BspLI	GGNNCC	1 cut(s)	40
BspOI	GCTAGC	1 cut(s)	311
BspPI	GGATC	3 cut(s)	17, 164, 273
BspT104I	TTCGAA	1 cut(s)	65
BspT107I	GGYRCC	1 cut(s)	38
BsrDI	GCAATG	1 cut(s)	441
BsrI	ACTGG	3 cut(s)	348, 494, 615
BssMI	GATC	5 cut(s)	18, 22, 169, 265, 498
Bst4CI	ACNGT	2 cut(s)	122, 388
BstBI	TTCGAA	1 cut(s)	65
BstC8I	GCNNGC	4 cut(s)	9, 73, 309, 461
BstDEI	CTNAG	1 cut(s)	53
BstFNI	CGCG	1 cut(s)	75
BstHHI	GCGC	1 cut(s)	487
BstKTI	GATC	5 cut(s)	21, 25, 172, 268, 501
BstMAI	GTCTC	1 cut(s)	561
BstMBI	GATC	5 cut(s)	18, 22, 169, 265, 498
BstMWI	GCNNNNNNNGC	3 cut(s)	137, 493, 552
BstSLI	GKGCMC	2 cut(s)	41, 402
BstUI	CGCG	1 cut(s)	75
BstV1I	GCAGC	1 cut(s)	567
BstX2I	RGATCY	1 cut(s)	265
BstYI	RGATCY	1 cut(s)	265
Bsu15I	ATCGAT	1 cut(s)	21
BsuRI	GGCC	1 cut(s)	140
BsuTUI	ATCGAT	1 cut(s)	21
BtsIMutI	CAGTG	1 cut(s)	487
Cac8I	GCNNGC	4 cut(s)	9, 73, 309, 461
CfoI	GCGC	1 cut(s)	487
Cfr13I	GGNCC	1 cut(s)	299
ClaI	ATCGAT	1 cut(s)	21
CspCI	CAANNNNNGTGG	2 cut(s)	583, 618
CviAII	CATG	1 cut(s)	586
CviJI	RGCY	4 cut(s)	140, 419, 463, 518
CviKI_1	RGCY	4 cut(s)	140, 419, 463, 518
DdeI	CTNAG	1 cut(s)	53
DpnI	GATC	5 cut(s)	20, 24, 171, 267, 500
DpnII	GATC	5 cut(s)	18, 22, 169, 265, 498
Eco147I	AGGCCT	1 cut(s)	140
Eco47I	GGWCC	1 cut(s)	299
FaeI	CATG	1 cut(s)	589
FalI	AAGNNNNNCTT	2 cut(s)	26, 58
FatI	CATG	1 cut(s)	585
FauNDI	CATATG	1 cut(s)	538
Fnu4HI	GCNGC	1 cut(s)	556
Fsp4HI	GCNGC	1 cut(s)	556
FspBI	CTAG	2 cut(s)	269, 308
GlaI	GCGC	1 cut(s)	486
GluI	GCNGC	1 cut(s)	556
HaeIII	GGCC	1 cut(s)	140
HhaI	GCGC	1 cut(s)	487
Hin1II	CATG	1 cut(s)	589
Hin6I	GCGC	1 cut(s)	485
HinP1I	GCGC	1 cut(s)	485
HinfI	GANTC	3 cut(s)	155, 243, 280
HphI	GGTGA	1 cut(s)	289
Hpy166II	GTNNAC	1 cut(s)	400
Hpy188III	TCNNGA	2 cut(s)	173, 671
Hpy8I	GTNNAC	1 cut(s)	400
HpyAV	CCTTC	3 cut(s)	61, 330, 557
HpyCH4III	ACNGT	2 cut(s)	122, 388
HpyCH4V	TGCA	4 cut(s)	183, 212, 400, 657
HpyF10VI	GCNNNNNNNGC	3 cut(s)	137, 493, 552
HpyF3I	CTNAG	1 cut(s)	53
Hsp92II	CATG	1 cut(s)	589
HspAI	GCGC	1 cut(s)	485
Kzo9I	GATC	5 cut(s)	18, 22, 169, 265, 498
LmnI	GCTCC	1 cut(s)	165
LpnPI	CCDG	9 cut(s)	73, 122, 186, 329, 416, 441, 445, 475, 596
Lsp1109I	GCAGC	1 cut(s)	567
LweI	GCATC	4 cut(s)	118, 461, 498, 666
MaeI	CTAG	2 cut(s)	269, 308
MaeIII	GTNAC	1 cut(s)	122
MalI	GATC	5 cut(s)	20, 24, 171, 267, 500
MboI	GATC	5 cut(s)	18, 22, 169, 265, 498
MboII	GAAGA	2 cut(s)	90, 99
MflI	RGATCY	1 cut(s)	265
MhlI	GDGCHC	3 cut(s)	41, 93, 402
MluCI	AATT	1 cut(s)	600
MluI	ACGCGT	1 cut(s)	73
MlyI	GAGTC	1 cut(s)	149
MnlI	CCTC	8 cut(s)	151, 156, 226, 244, 312, 359, 433, 630
MseI	TTAA	2 cut(s)	354, 362
MslI	CAYNNNNRTG	2 cut(s)	405, 506
MspA1I	CMGCKG	1 cut(s)	224
MvnI	CGCG	1 cut(s)	75
MwoI	GCNNNNNNNGC	3 cut(s)	137, 493, 552
NdeI	CATATG	1 cut(s)	538
NdeII	GATC	5 cut(s)	18, 22, 169, 265, 498
NheI	GCTAGC	1 cut(s)	307
NlaIII	CATG	1 cut(s)	589
NlaIV	GGNNCC	1 cut(s)	40
NspV	TTCGAA	1 cut(s)	65
PceI	AGGCCT	1 cut(s)	140
PfeI	GAWTC	2 cut(s)	243, 280
PkrI	GCNGC	1 cut(s)	557
PleI	GAGTC	1 cut(s)	149
PpsI	GAGTC	1 cut(s)	149
PspN4I	GGNNCC	1 cut(s)	40
PspPI	GGNCC	1 cut(s)	299
PsuI	RGATCY	1 cut(s)	265
RseI	CAYNNNNRTG	2 cut(s)	405, 506
SaqAI	TTAA	2 cut(s)	354, 362
SatI	GCNGC	1 cut(s)	556
Sau3AI	GATC	5 cut(s)	18, 22, 169, 265, 498
Sau96I	GGNCC	1 cut(s)	299
SchI	GAGTC	1 cut(s)	149
SduI	GDGCHC	3 cut(s)	41, 93, 402
SetI	ASST	4 cut(s)	44, 322, 361, 421
SfaNI	GCATC	4 cut(s)	118, 461, 498, 666
SfuI	TTCGAA	1 cut(s)	65
SinI	GGWCC	1 cut(s)	299
SmiMI	CAYNNNNRTG	2 cut(s)	405, 506
Sse9I	AATT	1 cut(s)	600
SseBI	AGGCCT	1 cut(s)	140
SsiI	CCGC	1 cut(s)	224
SspMI	CTAG	2 cut(s)	269, 308
StuI	AGGCCT	1 cut(s)	140
TaaI	ACNGT	2 cut(s)	122, 388
TaqI	TCGA	3 cut(s)	21, 65, 636
TasI	AATT	1 cut(s)	600
TfiI	GAWTC	2 cut(s)	243, 280
Tru1I	TTAA	2 cut(s)	354, 362
Tru9I	TTAA	2 cut(s)	354, 362
TscAI	CASTG	1 cut(s)	494
TseI	GCWGC	1 cut(s)	555
TspDTI	ATGAA	2 cut(s)	525, 555
TspGWI	ACGGA	1 cut(s)	273
TspRI	CASTG	1 cut(s)	494
VneI	GTGCAC	1 cut(s)	398
VpaK11BI	GGWCC	1 cut(s)	299
XspI	CTAG	2 cut(s)	269, 308

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