Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0001597

Physical Location & Seq

Genomic Coordinates Forward (+)

12492585 .. 12494166

Gene Structure 1582 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G012680.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 495 bp

ATGGCCAGGGATGGCAGCAATGCAGCAGCAGCGGAGGAATTGGCCGTGGGTTGCTTCGTCTCCATCAAGACCACCTTGGGCGACGACTTCCAGGGCCAGGTCATCACCTTCGACCTCCCCTCCAACATCCTCATCCTTCAAGAGGGTTTGAAAGGAGGGCCTAAGCGGAACATCAGGCTACTCAAGGCCAACTATATCAAGGAGTTGAGCTATTTGGGTCAAGCTGAAGACCCACTTGACAGTAAGAACTGTTACCTTGATCTTAATAGTCTCAGAGCCAGAGAGGAATCAGCTATCAGACAAGCAGAGGCAGAGTGTGAGAGGATCGGAGTTGGTGTCACCAGCCAGGCTCAGAACATTTTCGATGCCTTGTCTAAGACCAGTCCATATCTTCCCGAGTCTATCAGTGGAGGAACTCCTGCTACCCATGATCGGGTGAAGAAAGTGCTTGATTTGGAACTGTCATGCAGTCAATTAACATTGCATAGCATATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Protein Analysis

164

Amino Acids

17.77

Weight (kDa)

5.07

Isoelectric Point (pI)

50.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LSM12_LSM	PF21166	12 - 68	2.8e-13	LSM12, LSM domain
AD	PF09793	86 - 129	5.7e-10	Anticodon-binding domain

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

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

Orthologous Genes (Group: OG0001597)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G24050 AT1G70220 AT1G70220
fragaria_vesca	FvH4_4g34930
malus_domestica	MD13G1087800.v1.1 MD16G1088100.v1.1
prunus_persica	Prupe.1G258500_v2.0.a1 Prupe.1G258600_v2.0.a1
pyrus_communis	pycom13g07550
rosa_chinensis	RchiOBHm_Chr1g0347741 RchiOBHm_Chr2g0143691 RchiOBHm_Chr3g0467191 RchiOBHm_Chr4g0444371 RchiOBHm_Chr4g0444381 RchiOBHm_Chr5g0030111 RchiOBHm_Chr7g0224821
rosa_laevigata	RLG00000005836
rosa_multiflora	Rmu_sc0000962.1_g000074 Rmu_sc0001209.1_g000005 Rmu_sc0006184.1_g000013 Rmu_sc0011110.1_g000001
rosa_roxburghii	Rroxscaffold_5G00369700 Rroxscaffold_5G00384910
rosa_rugosa	Rorug01G0030100 Rorug04G0111300 Rorug04G0352300 Rorug04G0352400
rosa_samantha	Rh1AG203300 Rh1CG051400 Rh1CG188600 Rh1DG055700 Rh3AG134000 Rh3BG155300 Rh4AG231500 Rh4AG412700 Rh4BG424200 Rh4CG438500 Rh4DG419500 Rh5DG213500 Rh6AG083500 Rh6BG138800 Rh6CG072700 Rh6CG136300 Rh6DG069900 Rh6DG122500 Rh7AG494600
rosa_wichuraiana	Rw1G006150 Rw1G007330 Rw3G012680 Rw4G035450

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	32, 166
AclWI	GGATC	1 cut(s)	332
AcoI	YGGCCR	2 cut(s)	3, 42
AcuI	CTGAAG	1 cut(s)	246
AfiI	CCNNNNNNNGG	4 cut(s)	97, 142, 432, 433
AgsI	TTSAA	2 cut(s)	140, 151
AjnI	CCWGG	4 cut(s)	5, 90, 96, 345
AluBI	AGCT	3 cut(s)	210, 224, 293
AluI	AGCT	3 cut(s)	210, 224, 293
Alw26I	GTCTC	2 cut(s)	64, 275
AlwI	GGATC	1 cut(s)	332
Ama87I	CYCGRG	1 cut(s)	395
AoxI	GGCC	5 cut(s)	3, 42, 94, 158, 186
ApeKI	GCWGC	4 cut(s)	15, 23, 26, 29
Asp700I	GAANNNNTTC	1 cut(s)	359
AspS9I	GGNCC	2 cut(s)	94, 158
AsuHPI	GGTGA	3 cut(s)	97, 331, 448
AvaI	CYCGRG	1 cut(s)	395
BalI	TGGCCA	1 cut(s)	5
BbsI	GAAGAC	1 cut(s)	234
BbvI	GCAGC	4 cut(s)	27, 35, 38, 41
BccI	CCATC	2 cut(s)	5, 71
BceAI	ACGGC	1 cut(s)	29
BciT130I	CCWGG	4 cut(s)	7, 92, 98, 347
BcoDI	GTCTC	2 cut(s)	64, 275
BisI	GCNGC	4 cut(s)	16, 24, 27, 30
BlsI	GCNGC	4 cut(s)	17, 25, 28, 31
Bme1390I	CCNGG	4 cut(s)	7, 92, 98, 347
BmeT110I	CYCGRG	1 cut(s)	395
BmgT120I	GGNCC	2 cut(s)	94, 158
BmrFI	CCNGG	4 cut(s)	7, 92, 98, 347
BmsI	GCATC	1 cut(s)	355
BpiI	GAAGAC	1 cut(s)	234
Bpu10I	CCTNAGC	1 cut(s)	162
BpuEI	CTTGAG	1 cut(s)	167
BsaJI	CCNNGG	4 cut(s)	6, 45, 75, 91
BsaXI	ACNNNNNCTCC	4 cut(s)	104, 134, 321, 351
Bsc4I	CCNNNNNNNGG	4 cut(s)	97, 142, 432, 433
Bse1I	ACTGG	1 cut(s)	381
Bse3DI	GCAATG	2 cut(s)	25, 479
BseBI	CCWGG	4 cut(s)	7, 92, 98, 347
BseDI	CCNNGG	4 cut(s)	6, 45, 75, 91
BseGI	GGATG	3 cut(s)	16, 126, 132
BseLI	CCNNNNNNNGG	4 cut(s)	97, 142, 432, 433
BseMI	GCAATG	2 cut(s)	25, 479
BseMII	CTCAG	2 cut(s)	286, 365
BseNI	ACTGG	1 cut(s)	381
BseXI	GCAGC	4 cut(s)	27, 35, 38, 41
BshFI	GGCC	5 cut(s)	5, 44, 96, 160, 188
BsiHKCI	CYCGRG	1 cut(s)	395
BslI	CCNNNNNNNGG	4 cut(s)	97, 142, 432, 433
BsmAI	GTCTC	2 cut(s)	64, 275
BsmBI	CGTCTC	1 cut(s)	64
BsnI	GGCC	5 cut(s)	5, 44, 96, 160, 188
BsoBI	CYCGRG	1 cut(s)	395
Bsp143I	GATC	3 cut(s)	259, 324, 430
BspACI	CCGC	2 cut(s)	32, 166
BspANI	GGCC	5 cut(s)	5, 44, 96, 160, 188
BspCNI	CTCAG	2 cut(s)	285, 364
BspPI	GGATC	1 cut(s)	332
BsrDI	GCAATG	2 cut(s)	25, 479
BsrI	ACTGG	1 cut(s)	381
BssECI	CCNNGG	4 cut(s)	6, 45, 75, 91
BssMI	GATC	3 cut(s)	259, 324, 430
BssT1I	CCWWGG	1 cut(s)	75
Bst2UI	CCWGG	4 cut(s)	7, 92, 98, 347
Bst4CI	ACNGT	3 cut(s)	242, 251, 462
BstDEI	CTNAG	4 cut(s)	162, 272, 351, 375
BstDSI	CCRYGG	1 cut(s)	45
BstENI	CCTNNNNNAGG	1 cut(s)	140
BstF5I	GGATG	3 cut(s)	16, 126, 132
BstKTI	GATC	3 cut(s)	262, 327, 433
BstMAI	GTCTC	2 cut(s)	64, 275
BstMBI	GATC	3 cut(s)	259, 324, 430
BstMWI	GCNNNNNNNGC	1 cut(s)	29
BstNI	CCWGG	4 cut(s)	7, 92, 98, 347
BstSCI	CCNGG	4 cut(s)	5, 90, 96, 345
BstV1I	GCAGC	4 cut(s)	27, 35, 38, 41
BstV2I	GAAGAC	1 cut(s)	234
BsuRI	GGCC	5 cut(s)	5, 44, 96, 160, 188
BtgI	CCRYGG	1 cut(s)	45
BtsCI	GGATG	3 cut(s)	16, 126, 132
BtsIMutI	CAGTG	1 cut(s)	412
Cfr13I	GGNCC	2 cut(s)	94, 158
CviAII	CATG	2 cut(s)	428, 465
DdeI	CTNAG	4 cut(s)	162, 272, 351, 375
DpnI	GATC	3 cut(s)	261, 326, 432
DpnII	GATC	3 cut(s)	259, 324, 430
EaeI	YGGCCR	2 cut(s)	3, 42
Eco130I	CCWWGG	1 cut(s)	75
Eco57I	CTGAAG	1 cut(s)	246
Eco88I	CYCGRG	1 cut(s)	395
EcoNI	CCTNNNNNAGG	1 cut(s)	140
EcoO109I	RGGNCCY	1 cut(s)	158
EcoRII	CCWGG	4 cut(s)	5, 90, 96, 345
EcoT14I	CCWWGG	1 cut(s)	75
ErhI	CCWWGG	1 cut(s)	75
Esp3I	CGTCTC	1 cut(s)	64
FaeI	CATG	2 cut(s)	431, 468
FaiI	YATR	7 cut(s)	195, 388, 429, 466, 486, 491, 493
FalI	AAGNNNNNCTT	4 cut(s)	59, 91, 219, 251
FatI	CATG	2 cut(s)	427, 464
Fnu4HI	GCNGC	4 cut(s)	16, 24, 27, 30
FokI	GGATG	3 cut(s)	23, 113, 119
Fsp4HI	GCNGC	4 cut(s)	16, 24, 27, 30
GluI	GCNGC	4 cut(s)	16, 24, 27, 30
HaeIII	GGCC	5 cut(s)	5, 44, 96, 160, 188
Hin1II	CATG	2 cut(s)	431, 468
HinfI	GANTC	2 cut(s)	287, 398
HphI	GGTGA	3 cut(s)	97, 331, 448
Hpy188I	TCNGA	4 cut(s)	275, 299, 329, 354
Hpy188III	TCNNGA	3 cut(s)	67, 140, 395
Hpy99I	CGWCG	1 cut(s)	86
HpyAV	CCTTC	2 cut(s)	118, 146
HpyCH4III	ACNGT	3 cut(s)	242, 251, 462
HpyCH4V	TGCA	3 cut(s)	23, 468, 484
HpyF10VI	GCNNNNNNNGC	1 cut(s)	29
HpyF3I	CTNAG	4 cut(s)	162, 272, 351, 375
Hsp92II	CATG	2 cut(s)	431, 468
Kzo9I	GATC	3 cut(s)	259, 324, 430
Lsp1109I	GCAGC	4 cut(s)	27, 35, 38, 41
LweI	GCATC	1 cut(s)	355
MaeIII	GTNAC	2 cut(s)	251, 337
MalI	GATC	3 cut(s)	261, 326, 432
MboI	GATC	3 cut(s)	259, 324, 430
MboII	GAAGA	3 cut(s)	239, 383, 451
MlsI	TGGCCA	1 cut(s)	5
MluCI	AATT	2 cut(s)	38, 473
MluNI	TGGCCA	1 cut(s)	5
MlyI	GAGTC	1 cut(s)	407
MmeI	TCCRAC	1 cut(s)	147
Mox20I	TGGCCA	1 cut(s)	5
MroXI	GAANNNNTTC	1 cut(s)	359
MscI	TGGCCA	1 cut(s)	5
MseI	TTAA	2 cut(s)	264, 476
Msp20I	TGGCCA	1 cut(s)	5
MspA1I	CMGCKG	1 cut(s)	32
MspR9I	CCNGG	4 cut(s)	7, 92, 98, 347
MvaI	CCWGG	4 cut(s)	7, 92, 98, 347
MwoI	GCNNNNNNNGC	1 cut(s)	29
NdeII	GATC	3 cut(s)	259, 324, 430
NlaIII	CATG	2 cut(s)	431, 468
NmuCI	GTSAC	1 cut(s)	337
PdmI	GAANNNNTTC	1 cut(s)	359
PfeI	GAWTC	1 cut(s)	287
PkrI	GCNGC	4 cut(s)	17, 25, 28, 31
PleI	GAGTC	1 cut(s)	406
PpsI	GAGTC	1 cut(s)	406
Psp6I	CCWGG	4 cut(s)	5, 90, 96, 345
PspGI	CCWGG	4 cut(s)	5, 90, 96, 345
PspPI	GGNCC	2 cut(s)	94, 158
PsrI	GAACNNNNNNTAC	2 cut(s)	406, 438
SaqAI	TTAA	2 cut(s)	264, 476
SatI	GCNGC	4 cut(s)	16, 24, 27, 30
Sau3AI	GATC	3 cut(s)	259, 324, 430
Sau96I	GGNCC	2 cut(s)	94, 158
SchI	GAGTC	1 cut(s)	407
ScrFI	CCNGG	4 cut(s)	7, 92, 98, 347
SetI	ASST	8 cut(s)	77, 102, 110, 117, 212, 226, 258, 295
SfaNI	GCATC	1 cut(s)	355
SmlI	CTYRAG	1 cut(s)	182
SmoI	CTYRAG	1 cut(s)	182
Sse9I	AATT	2 cut(s)	38, 473
SsiI	CCGC	2 cut(s)	32, 166
StyD4I	CCNGG	4 cut(s)	5, 90, 96, 345
StyI	CCWWGG	1 cut(s)	75
TaaI	ACNGT	3 cut(s)	242, 251, 462
TaqI	TCGA	2 cut(s)	111, 363
TasI	AATT	2 cut(s)	38, 473
TfiI	GAWTC	1 cut(s)	287
Tru1I	TTAA	2 cut(s)	264, 476
Tru9I	TTAA	2 cut(s)	264, 476
TscAI	CASTG	1 cut(s)	412
TseFI	GTSAC	1 cut(s)	337
TseI	GCWGC	4 cut(s)	15, 23, 26, 29
Tsp45I	GTSAC	1 cut(s)	337
TspRI	CASTG	1 cut(s)	412
XagI	CCTNNNNNAGG	1 cut(s)	140
XmnI	GAANNNNTTC	1 cut(s)	359

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