Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0003388

Physical Location & Seq

Genomic Coordinates Forward (+)

36435361 .. 36447054

Gene Structure 11694 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG291600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 270 bp

ATGGGTTATAGATTTATAGGTTTTGGAATATGGATGAGGGGATTGGTTATTGATTGGTTTCATTTGACTTTTGTGATTGTGTTTCAGGTTTTGGGCATTCCATGGGATATTGATACAGACGGGTTGAGAGAGTATATGAGCAAATATGTGGAATTGGAGGATTGTATTGTAATGAAGGAGCGGTCAACTGGCCGATCTCGTCGATTTGGATATGTAAAGTTTGCATCAGTTGAAGATGCCAAGCTTAGTTATCTTATAGCTTCTGGTTAG

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

89

Amino Acids

10.4

Weight (kDa)

6.55

Isoelectric Point (pI)

33.94

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	32 - 81	8.3e-10	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

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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)	181
AciI	CCGC	1 cut(s)	181
AcoI	YGGCCR	1 cut(s)	190
AgsI	TTSAA	1 cut(s)	233
AluBI	AGCT	2 cut(s)	244, 260
AluI	AGCT	2 cut(s)	244, 260
AoxI	GGCC	1 cut(s)	190
BmsI	GCATC	2 cut(s)	226, 233
BsaJI	CCNNGG	1 cut(s)	101
Bse1I	ACTGG	1 cut(s)	193
BseDI	CCNNGG	1 cut(s)	101
BseGI	GGATG	1 cut(s)	39
BseNI	ACTGG	1 cut(s)	193
BshFI	GGCC	1 cut(s)	192
BsmI	GAATGC	1 cut(s)	96
BsnI	GGCC	1 cut(s)	192
Bsp143I	GATC	1 cut(s)	194
Bsp19I	CCATGG	1 cut(s)	101
BspACI	CCGC	1 cut(s)	181
BspANI	GGCC	1 cut(s)	192
BsrBI	CCGCTC	1 cut(s)	181
BsrI	ACTGG	1 cut(s)	193
BssECI	CCNNGG	1 cut(s)	101
BssMI	GATC	1 cut(s)	194
BssT1I	CCWWGG	1 cut(s)	101
BstDEI	CTNAG	1 cut(s)	245
BstDSI	CCRYGG	1 cut(s)	101
BstF5I	GGATG	1 cut(s)	39
BstKTI	GATC	1 cut(s)	197
BstMBI	GATC	1 cut(s)	194
BsuRI	GGCC	1 cut(s)	192
BtgI	CCRYGG	1 cut(s)	101
BtsCI	GGATG	1 cut(s)	39
CviAII	CATG	1 cut(s)	102
CviJI	RGCY	3 cut(s)	192, 244, 260
CviKI_1	RGCY	3 cut(s)	192, 244, 260
DdeI	CTNAG	1 cut(s)	245
DpnI	GATC	1 cut(s)	196
DpnII	GATC	1 cut(s)	194
EaeI	YGGCCR	1 cut(s)	190
Eco130I	CCWWGG	1 cut(s)	101
EcoT14I	CCWWGG	1 cut(s)	101
ErhI	CCWWGG	1 cut(s)	101
FaeI	CATG	1 cut(s)	105
FaiI	YATR	9 cut(s)	9, 17, 31, 103, 135, 137, 147, 213, 257
FatI	CATG	1 cut(s)	101
FokI	GGATG	1 cut(s)	46
HaeIII	GGCC	1 cut(s)	192
Hin1II	CATG	1 cut(s)	105
HincII	GTYRAC	1 cut(s)	186
HindII	GTYRAC	1 cut(s)	186
HindIII	AAGCTT	1 cut(s)	242
Hpy166II	GTNNAC	1 cut(s)	186
Hpy8I	GTNNAC	1 cut(s)	186
Hpy99I	CGWCG	1 cut(s)	204
HpyAV	CCTTC	1 cut(s)	169
HpyCH4V	TGCA	1 cut(s)	224
HpyF3I	CTNAG	1 cut(s)	245
Hsp92II	CATG	1 cut(s)	105
Kzo9I	GATC	1 cut(s)	194
LmnI	GCTCC	1 cut(s)	178
LpnPI	CCDG	3 cut(s)	71, 174, 249
LweI	GCATC	2 cut(s)	226, 233
MalI	GATC	1 cut(s)	196
MbiI	CCGCTC	1 cut(s)	181
MboI	GATC	1 cut(s)	194
MboII	GAAGA	1 cut(s)	245
MluCI	AATT	1 cut(s)	152
MnlI	CCTC	2 cut(s)	30, 151
Mva1269I	GAATGC	1 cut(s)	96
NcoI	CCATGG	1 cut(s)	101
NdeII	GATC	1 cut(s)	194
NlaIII	CATG	1 cut(s)	105
PctI	GAATGC	1 cut(s)	96
Sau3AI	GATC	1 cut(s)	194
SetI	ASST	4 cut(s)	22, 90, 246, 262
SfaNI	GCATC	2 cut(s)	226, 233
SgeI	CNNG	6 cut(s)	98, 114, 133, 201, 210, 253
Sse9I	AATT	1 cut(s)	152
SsiI	CCGC	1 cut(s)	181
StyI	CCWWGG	1 cut(s)	101
TaqI	TCGA	1 cut(s)	202
TasI	AATT	1 cut(s)	152
TspDTI	ATGAA	2 cut(s)	50, 188

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