Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0001597

Physical Location & Seq

Genomic Coordinates Forward (+)

11635287 .. 11635849

Gene Structure 563 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG134000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 396 bp

ATGAAGAAGAAGATGGCCAGGGATGGCAGCAATGCAGCAGCAGCGGAGGAATTGGCCGTCGGTTGCTTCGTCTCCATCAAGACCACCTTGGGCGACAACTTCCAGGGCCAGGTCATCACCTTCGACCGCCCCTCCAACATCCTCATCCTTCAAGAGGGTTTGAAAGGAGGGCCTAAGCGGAACATCAGGCTACTCAAGGCCAACTATATCAAGGAGTTGAGCTATTTGGGTCAAGCTGAAGACCCACTTGACAGTAAGAACTGTTACCTTGATCTTAATAGTCTCAGAGCCAGAGAGGAATCAGCTATCAGACAAGCAGAGGCAGAGTGTGAGAGGATCGGAGTTGGTGTCACCAGCCAGGCTCAGAACATTTTCGATGCCTTGTCTAAGACGTGA

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

131

Amino Acids

14.35

Weight (kDa)

7.66

Isoelectric Point (pI)

49.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LSM12_LSM	PF21166	16 - 72	4.5e-14	LSM12, LSM domain
AD	PF09793	90 - 131	1.3e-09	Anticodon-binding domain

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

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Publication-ready

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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	3 cut(s)	44, 127, 178
AclWI	GGATC	1 cut(s)	344
AcoI	YGGCCR	2 cut(s)	15, 54
AcuI	CTGAAG	1 cut(s)	258
AfiI	CCNNNNNNNGG	2 cut(s)	109, 154
AgsI	TTSAA	2 cut(s)	152, 163
AjiI	CACGTC	1 cut(s)	393
AjnI	CCWGG	4 cut(s)	17, 102, 108, 357
AluBI	AGCT	3 cut(s)	222, 236, 305
AluI	AGCT	3 cut(s)	222, 236, 305
Alw26I	GTCTC	2 cut(s)	76, 287
AlwI	GGATC	1 cut(s)	344
AoxI	GGCC	5 cut(s)	15, 54, 106, 170, 198
ApeKI	GCWGC	4 cut(s)	27, 35, 38, 41
Asp700I	GAANNNNTTC	1 cut(s)	371
AspS9I	GGNCC	2 cut(s)	106, 170
AsuHPI	GGTGA	2 cut(s)	109, 343
BalI	TGGCCA	1 cut(s)	17
BbsI	GAAGAC	1 cut(s)	246
BbvI	GCAGC	4 cut(s)	39, 47, 50, 53
BccI	CCATC	3 cut(s)	7, 17, 83
BceAI	ACGGC	1 cut(s)	41
BciT130I	CCWGG	4 cut(s)	19, 104, 110, 359
BcoDI	GTCTC	2 cut(s)	76, 287
BisI	GCNGC	4 cut(s)	28, 36, 39, 42
BlsI	GCNGC	4 cut(s)	29, 37, 40, 43
Bme1390I	CCNGG	4 cut(s)	19, 104, 110, 359
BmgBI	CACGTC	1 cut(s)	393
BmgT120I	GGNCC	2 cut(s)	106, 170
BmrFI	CCNGG	4 cut(s)	19, 104, 110, 359
BmsI	GCATC	1 cut(s)	367
BpiI	GAAGAC	1 cut(s)	246
Bpu10I	CCTNAGC	1 cut(s)	174
BpuEI	CTTGAG	1 cut(s)	179
BsaJI	CCNNGG	3 cut(s)	18, 87, 103
BsaXI	ACNNNNNCTCC	4 cut(s)	116, 146, 333, 363
Bsc4I	CCNNNNNNNGG	2 cut(s)	109, 154
Bse3DI	GCAATG	1 cut(s)	37
BseBI	CCWGG	4 cut(s)	19, 104, 110, 359
BseDI	CCNNGG	3 cut(s)	18, 87, 103
BseGI	GGATG	3 cut(s)	28, 138, 144
BseLI	CCNNNNNNNGG	2 cut(s)	109, 154
BseMI	GCAATG	1 cut(s)	37
BseMII	CTCAG	2 cut(s)	298, 377
BseXI	GCAGC	4 cut(s)	39, 47, 50, 53
Bsh1285I	CGRYCG	1 cut(s)	127
BshFI	GGCC	5 cut(s)	17, 56, 108, 172, 200
BsiEI	CGRYCG	1 cut(s)	127
BslI	CCNNNNNNNGG	2 cut(s)	109, 154
BsmAI	GTCTC	2 cut(s)	76, 287
BsmBI	CGTCTC	1 cut(s)	76
BsnI	GGCC	5 cut(s)	17, 56, 108, 172, 200
Bsp143I	GATC	2 cut(s)	271, 336
BspACI	CCGC	3 cut(s)	44, 127, 178
BspANI	GGCC	5 cut(s)	17, 56, 108, 172, 200
BspCNI	CTCAG	2 cut(s)	297, 376
BspPI	GGATC	1 cut(s)	344
BsrDI	GCAATG	1 cut(s)	37
BssECI	CCNNGG	3 cut(s)	18, 87, 103
BssMI	GATC	2 cut(s)	271, 336
BssT1I	CCWWGG	1 cut(s)	87
Bst2UI	CCWGG	4 cut(s)	19, 104, 110, 359
Bst4CI	ACNGT	2 cut(s)	254, 263
BstDEI	CTNAG	4 cut(s)	174, 284, 363, 387
BstENI	CCTNNNNNAGG	1 cut(s)	152
BstF5I	GGATG	3 cut(s)	28, 138, 144
BstKTI	GATC	2 cut(s)	274, 339
BstMAI	GTCTC	2 cut(s)	76, 287
BstMBI	GATC	2 cut(s)	271, 336
BstMCI	CGRYCG	1 cut(s)	127
BstMWI	GCNNNNNNNGC	1 cut(s)	41
BstNI	CCWGG	4 cut(s)	19, 104, 110, 359
BstSCI	CCNGG	4 cut(s)	17, 102, 108, 357
BstV1I	GCAGC	4 cut(s)	39, 47, 50, 53
BstV2I	GAAGAC	1 cut(s)	246
BsuRI	GGCC	5 cut(s)	17, 56, 108, 172, 200
BtrI	CACGTC	1 cut(s)	393
BtsCI	GGATG	3 cut(s)	28, 138, 144
Cfr13I	GGNCC	2 cut(s)	106, 170
DdeI	CTNAG	4 cut(s)	174, 284, 363, 387
DpnI	GATC	2 cut(s)	273, 338
DpnII	GATC	2 cut(s)	271, 336
EaeI	YGGCCR	2 cut(s)	15, 54
Eco130I	CCWWGG	1 cut(s)	87
Eco57I	CTGAAG	1 cut(s)	258
EcoNI	CCTNNNNNAGG	1 cut(s)	152
EcoO109I	RGGNCCY	1 cut(s)	170
EcoRII	CCWGG	4 cut(s)	17, 102, 108, 357
EcoT14I	CCWWGG	1 cut(s)	87
ErhI	CCWWGG	1 cut(s)	87
Esp3I	CGTCTC	1 cut(s)	76
FaiI	YATR	1 cut(s)	207
FalI	AAGNNNNNCTT	4 cut(s)	71, 103, 231, 263
Fnu4HI	GCNGC	4 cut(s)	28, 36, 39, 42
FokI	GGATG	3 cut(s)	35, 125, 131
Fsp4HI	GCNGC	4 cut(s)	28, 36, 39, 42
GluI	GCNGC	4 cut(s)	28, 36, 39, 42
HaeIII	GGCC	5 cut(s)	17, 56, 108, 172, 200
HinfI	GANTC	1 cut(s)	299
HphI	GGTGA	2 cut(s)	109, 343
Hpy188I	TCNGA	4 cut(s)	287, 311, 341, 366
Hpy188III	TCNNGA	2 cut(s)	79, 152
Hpy99I	CGWCG	1 cut(s)	62
HpyAV	CCTTC	2 cut(s)	130, 158
HpyCH4III	ACNGT	2 cut(s)	254, 263
HpyCH4IV	ACGT	1 cut(s)	392
HpyCH4V	TGCA	1 cut(s)	35
HpyF10VI	GCNNNNNNNGC	1 cut(s)	41
HpyF3I	CTNAG	4 cut(s)	174, 284, 363, 387
HpySE526I	ACGT	1 cut(s)	392
Kzo9I	GATC	2 cut(s)	271, 336
Lsp1109I	GCAGC	4 cut(s)	39, 47, 50, 53
LweI	GCATC	1 cut(s)	367
MaeII	ACGT	1 cut(s)	392
MaeIII	GTNAC	2 cut(s)	263, 349
MalI	GATC	2 cut(s)	273, 338
MboI	GATC	2 cut(s)	271, 336
MboII	GAAGA	4 cut(s)	16, 19, 22, 251
MlsI	TGGCCA	1 cut(s)	17
MluCI	AATT	1 cut(s)	50
MluNI	TGGCCA	1 cut(s)	17
MmeI	TCCRAC	1 cut(s)	159
MnlI	CCTC	8 cut(s)	40, 142, 148, 152, 161, 289, 313, 327
Mox20I	TGGCCA	1 cut(s)	17
MroXI	GAANNNNTTC	1 cut(s)	371
MscI	TGGCCA	1 cut(s)	17
MseI	TTAA	1 cut(s)	276
Msp20I	TGGCCA	1 cut(s)	17
MspA1I	CMGCKG	1 cut(s)	44
MspR9I	CCNGG	4 cut(s)	19, 104, 110, 359
MvaI	CCWGG	4 cut(s)	19, 104, 110, 359
MwoI	GCNNNNNNNGC	1 cut(s)	41
NdeII	GATC	2 cut(s)	271, 336
NmuCI	GTSAC	1 cut(s)	349
PcsI	WCGNNNNNNNCGW	1 cut(s)	66
PdmI	GAANNNNTTC	1 cut(s)	371
PfeI	GAWTC	1 cut(s)	299
PkrI	GCNGC	4 cut(s)	29, 37, 40, 43
Psp6I	CCWGG	4 cut(s)	17, 102, 108, 357
PspGI	CCWGG	4 cut(s)	17, 102, 108, 357
PspPI	GGNCC	2 cut(s)	106, 170
SaqAI	TTAA	1 cut(s)	276
SatI	GCNGC	4 cut(s)	28, 36, 39, 42
Sau3AI	GATC	2 cut(s)	271, 336
Sau96I	GGNCC	2 cut(s)	106, 170
ScrFI	CCNGG	4 cut(s)	19, 104, 110, 359
SetI	ASST	8 cut(s)	89, 114, 122, 224, 238, 270, 307, 395
SfaNI	GCATC	1 cut(s)	367
SmlI	CTYRAG	1 cut(s)	194
SmoI	CTYRAG	1 cut(s)	194
Sse9I	AATT	1 cut(s)	50
SsiI	CCGC	3 cut(s)	44, 127, 178
StyD4I	CCNGG	4 cut(s)	17, 102, 108, 357
StyI	CCWWGG	1 cut(s)	87
TaaI	ACNGT	2 cut(s)	254, 263
TaiI	ACGT	1 cut(s)	395
TaqI	TCGA	2 cut(s)	123, 375
TasI	AATT	1 cut(s)	50
TfiI	GAWTC	1 cut(s)	299
Tru1I	TTAA	1 cut(s)	276
Tru9I	TTAA	1 cut(s)	276
TseFI	GTSAC	1 cut(s)	349
TseI	GCWGC	4 cut(s)	27, 35, 38, 41
Tsp45I	GTSAC	1 cut(s)	349
TspDTI	ATGAA	1 cut(s)	17
XagI	CCTNNNNNAGG	1 cut(s)	152
XmnI	GAANNNNTTC	1 cut(s)	371

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