Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0003388

Physical Location & Seq

Genomic Coordinates Forward (+)

43610335 .. 43611460

Gene Structure 1126 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG247300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 297 bp

ATGGCGAGATTACGGGCATTCAGTTCGAGGGGTTCGTGCCTATGGTCATTGAAACGGATCATTCAGGTTTTGGGCATTCCATGGGATATTGATACAGATGGGTTGAGAGAGTATATGAGCAAATATGTGGAATTGGAGGATTGTATTGTAATGAAGGAGCGGTCAACTGGCCGATCTCGTGGATTTGGATATGTAAAGTTTGCATCAGCTGAAGATGCCAAAGTGTGTCGTCAAGTGAGAACTTTCTTGGTAATCGAATGCTGGAAGTTAAAGTGGCTACCCCAAAGGAAGAGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0003730 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005737 GO:0005849 GO:0006139 GO:0006378 GO:0006379 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0031123 GO:0031124 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043631 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko03015 map03015

Pfam Domains

Protein Families

RRM_1

Protein Analysis

98

Amino Acids

11.56

Weight (kDa)

9.83

Isoelectric Point (pI)

64.39

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	23 - 78	4.9e-11	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0003388)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G36960 AT4G36960
fragaria_vesca	FvH4_1g16100 FvH4_1g16100 FvH4_1g16100 FvH4_1g16100 FvH4_1g16100 FvH4_1g16100 FvH4_1g16100
malus_domestica	MD02G1172600.v1.1 MD15G1284600.v1.1
prunus_persica	Prupe.7G132900_v2.0.a1
pyrus_communis	pycom02g13910 pycom15g24730
rosa_chinensis	RchiOBHm_Chr2g0105721
rosa_laevigata	RLG00000017453
rosa_multiflora	Rmu_sc0000594.1_g000060 Rmu_sc0001051.1_g000061 Rmu_sc0039055.1_g000001
rosa_roxburghii	Rroxscaffold_1G00002090 Rroxscaffold_1G00038100 Rroxscaffold_2G00137950 Rroxscaffold_5G00348070
rosa_rugosa	Rorug01G0167000 Rorug02G0129800 Rorug02G0283100
rosa_samantha	Rh2AG181200 Rh2BG190300 Rh2CG185400 Rh5BG197900 Rh5BG450300 Rh5CG472700 Rh5DG291600 Rh5DG464000 Rh6AG247300
rosa_wichuraiana	Rw2G014170

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	160
AciI	CCGC	1 cut(s)	160
AclWI	GGATC	1 cut(s)	65
AcoI	YGGCCR	1 cut(s)	169
AcuI	CTGAAG	1 cut(s)	231
AgsI	TTSAA	1 cut(s)	52
AluBI	AGCT	1 cut(s)	209
AluI	AGCT	1 cut(s)	209
AlwI	GGATC	1 cut(s)	65
AoxI	GGCC	1 cut(s)	169
BauI	CACGAG	1 cut(s)	177
BccI	CCATC	1 cut(s)	92
BcgI	CGANNNNNNTGC	2 cut(s)	6, 40
BmsI	GCATC	2 cut(s)	205, 212
BsaJI	CCNNGG	1 cut(s)	80
Bse1I	ACTGG	1 cut(s)	172
BseDI	CCNNGG	1 cut(s)	80
BseNI	ACTGG	1 cut(s)	172
BshFI	GGCC	1 cut(s)	171
BsmI	GAATGC	3 cut(s)	17, 75, 263
BsnI	GGCC	1 cut(s)	171
Bsp143I	GATC	2 cut(s)	57, 173
Bsp19I	CCATGG	1 cut(s)	80
BspACI	CCGC	1 cut(s)	160
BspANI	GGCC	1 cut(s)	171
BspPI	GGATC	1 cut(s)	65
BsrBI	CCGCTC	1 cut(s)	160
BsrI	ACTGG	1 cut(s)	172
BssECI	CCNNGG	1 cut(s)	80
BssMI	GATC	2 cut(s)	57, 173
BssSI	CACGAG	1 cut(s)	177
BssT1I	CCWWGG	1 cut(s)	80
Bst2BI	CACGAG	1 cut(s)	177
Bst6I	CTCTTC	1 cut(s)	284
BstDSI	CCRYGG	1 cut(s)	80
BstKTI	GATC	2 cut(s)	60, 176
BstMBI	GATC	2 cut(s)	57, 173
BstMWI	GCNNNNNNNGC	1 cut(s)	215
BsuRI	GGCC	1 cut(s)	171
BtgI	CCRYGG	1 cut(s)	80
CviAII	CATG	1 cut(s)	81
CviJI	RGCY	3 cut(s)	171, 209, 277
CviKI_1	RGCY	3 cut(s)	171, 209, 277
DpnI	GATC	2 cut(s)	59, 175
DpnII	GATC	2 cut(s)	57, 173
EaeI	YGGCCR	1 cut(s)	169
Eam1104I	CTCTTC	1 cut(s)	284
EarI	CTCTTC	1 cut(s)	284
Eco130I	CCWWGG	1 cut(s)	80
Eco57I	CTGAAG	1 cut(s)	231
EcoT14I	CCWWGG	1 cut(s)	80
ErhI	CCWWGG	1 cut(s)	80
FaeI	CATG	1 cut(s)	84
FaiI	YATR	6 cut(s)	43, 82, 114, 116, 126, 192
FatI	CATG	1 cut(s)	80
HaeIII	GGCC	1 cut(s)	171
Hin1II	CATG	1 cut(s)	84
HincII	GTYRAC	1 cut(s)	165
HindII	GTYRAC	1 cut(s)	165
Hpy166II	GTNNAC	1 cut(s)	165
Hpy8I	GTNNAC	1 cut(s)	165
HpyAV	CCTTC	1 cut(s)	148
HpyCH4V	TGCA	1 cut(s)	203
HpyF10VI	GCNNNNNNNGC	1 cut(s)	215
Hsp92II	CATG	1 cut(s)	84
Kzo9I	GATC	2 cut(s)	57, 173
LmnI	GCTCC	1 cut(s)	157
LpnPI	CCDG	3 cut(s)	50, 153, 247
LweI	GCATC	2 cut(s)	205, 212
MalI	GATC	2 cut(s)	59, 175
MbiI	CCGCTC	1 cut(s)	160
MboI	GATC	2 cut(s)	57, 173
MboII	GAAGA	1 cut(s)	224
MluCI	AATT	1 cut(s)	131
MnlI	CCTC	2 cut(s)	21, 130
MseI	TTAA	1 cut(s)	269
MspA1I	CMGCKG	1 cut(s)	209
Mva1269I	GAATGC	3 cut(s)	17, 75, 263
MwoI	GCNNNNNNNGC	1 cut(s)	215
NcoI	CCATGG	1 cut(s)	80
NdeII	GATC	2 cut(s)	57, 173
NlaIII	CATG	1 cut(s)	84
PcsI	WCGNNNNNNNCGW	1 cut(s)	32
PctI	GAATGC	3 cut(s)	17, 75, 263
PvuII	CAGCTG	1 cut(s)	209
SaqAI	TTAA	1 cut(s)	269
Sau3AI	GATC	2 cut(s)	57, 173
SetI	ASST	2 cut(s)	69, 211
SfaNI	GCATC	2 cut(s)	205, 212
Sse9I	AATT	1 cut(s)	131
SsiI	CCGC	1 cut(s)	160
StyI	CCWWGG	1 cut(s)	80
TaqI	TCGA	2 cut(s)	26, 255
TasI	AATT	1 cut(s)	131
Tru1I	TTAA	1 cut(s)	269
Tru9I	TTAA	1 cut(s)	269
TspDTI	ATGAA	1 cut(s)	167
TspGWI	ACGGA	1 cut(s)	70

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