Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0003388

Physical Location & Seq

Genomic Coordinates Reverse (-)

73570943 .. 73574682

Gene Structure 3740 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG464000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 369 bp

ATGGGTTATAGATTTATAGGTTTTGGAATATGGATGAGGGGATTGGTTTTGGGCATTCCATGGGATATTGATACAGACTGGTTGAGAGTGTATATGAGCAAATATGTGGAATTGGAGGATTGTATTGTAATGAAGGAGCGGTCAACTGGCCAATCTCGTGGATTTGGATATGTAAAGTTCGCATCAGCTGAAGATGCCAAGCTGAGTTGTCTTATAGCTTCTGGAAGATATGAGAGCATCTGCAAGAAAAGTTACCAGGATATTTGTTGCAAGGATCCCACAATCTATGATAGAAGCGAACTTTTGAGGCGACTCAATTTCTGTTTGTTTGAGTGTTTGATTTGTGGCTCAAAAGCAGCTGAGCTCTAG

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

122

Amino Acids

14.06

Weight (kDa)

7.46

Isoelectric Point (pI)

47.24

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	17 - 67	4.3e-09	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)	139
AciI	CCGC	1 cut(s)	139
AclWI	GGATC	2 cut(s)	269, 282
AcoI	YGGCCR	1 cut(s)	148
AcuI	CTGAAG	1 cut(s)	210
AjnI	CCWGG	1 cut(s)	255
AluBI	AGCT	5 cut(s)	188, 202, 218, 359, 364
AluI	AGCT	5 cut(s)	188, 202, 218, 359, 364
Alw21I	GWGCWC	1 cut(s)	366
AlwI	GGATC	2 cut(s)	269, 282
AoxI	GGCC	1 cut(s)	148
ApeKI	GCWGC	1 cut(s)	356
BalI	TGGCCA	1 cut(s)	150
BamHI	GGATCC	1 cut(s)	274
BanII	GRGCYC	1 cut(s)	366
BauI	CACGAG	1 cut(s)	156
Bbv12I	GWGCWC	1 cut(s)	366
BciT130I	CCWGG	1 cut(s)	257
BfaI	CTAG	1 cut(s)	367
BisI	GCNGC	1 cut(s)	357
BlpI	GCTNAGC	1 cut(s)	360
BlsI	GCNGC	1 cut(s)	358
Bme1390I	CCNGG	1 cut(s)	257
BmiI	GGNNCC	1 cut(s)	276
BmrFI	CCNGG	1 cut(s)	257
BmsI	GCATC	3 cut(s)	184, 191, 246
Bpu1102I	GCTNAGC	1 cut(s)	360
BsaJI	CCNNGG	1 cut(s)	59
Bse1I	ACTGG	2 cut(s)	83, 151
BseBI	CCWGG	1 cut(s)	257
BseDI	CCNNGG	1 cut(s)	59
BseGI	GGATG	1 cut(s)	39
BseMII	CTCAG	2 cut(s)	194, 351
BseNI	ACTGG	2 cut(s)	83, 151
BshFI	GGCC	1 cut(s)	150
BsiHKAI	GWGCWC	1 cut(s)	366
BsmI	GAATGC	1 cut(s)	54
BsnI	GGCC	1 cut(s)	150
Bsp1286I	GDGCHC	1 cut(s)	366
Bsp143I	GATC	1 cut(s)	274
Bsp1720I	GCTNAGC	1 cut(s)	360
Bsp19I	CCATGG	1 cut(s)	59
BspACI	CCGC	1 cut(s)	139
BspANI	GGCC	1 cut(s)	150
BspCNI	CTCAG	2 cut(s)	195, 352
BspLI	GGNNCC	1 cut(s)	276
BspPI	GGATC	2 cut(s)	269, 282
BsrBI	CCGCTC	1 cut(s)	139
BsrI	ACTGG	2 cut(s)	83, 151
BssECI	CCNNGG	1 cut(s)	59
BssMI	GATC	1 cut(s)	274
BssSI	CACGAG	1 cut(s)	156
BssT1I	CCWWGG	1 cut(s)	59
Bst2BI	CACGAG	1 cut(s)	156
Bst2UI	CCWGG	1 cut(s)	257
BstDEI	CTNAG	2 cut(s)	203, 360
BstDSI	CCRYGG	1 cut(s)	59
BstF5I	GGATG	1 cut(s)	39
BstKTI	GATC	1 cut(s)	277
BstMBI	GATC	1 cut(s)	274
BstMWI	GCNNNNNNNGC	1 cut(s)	194
BstNI	CCWGG	1 cut(s)	257
BstSCI	CCNGG	1 cut(s)	255
BstX2I	RGATCY	1 cut(s)	274
BstXI	CCANNNNNNTGG	1 cut(s)	158
BstYI	RGATCY	1 cut(s)	274
BsuRI	GGCC	1 cut(s)	150
BtgI	CCRYGG	1 cut(s)	59
BtsCI	GGATG	1 cut(s)	39
CviAII	CATG	1 cut(s)	60
CviJI	RGCY	7 cut(s)	150, 188, 202, 218, 348, 359, 364
CviKI_1	RGCY	7 cut(s)	150, 188, 202, 218, 348, 359, 364
DdeI	CTNAG	2 cut(s)	203, 360
DpnI	GATC	1 cut(s)	276
DpnII	GATC	1 cut(s)	274
EaeI	YGGCCR	1 cut(s)	148
Ecl136II	GAGCTC	1 cut(s)	364
Eco130I	CCWWGG	1 cut(s)	59
Eco24I	GRGCYC	1 cut(s)	366
Eco53kI	GAGCTC	1 cut(s)	364
Eco57I	CTGAAG	1 cut(s)	210
EcoICRI	GAGCTC	1 cut(s)	364
EcoRII	CCWGG	1 cut(s)	255
EcoT14I	CCWWGG	1 cut(s)	59
EcoT38I	GRGCYC	1 cut(s)	366
ErhI	CCWWGG	1 cut(s)	59
FaeI	CATG	1 cut(s)	63
FatI	CATG	1 cut(s)	59
Fnu4HI	GCNGC	1 cut(s)	357
FokI	GGATG	1 cut(s)	46
FriOI	GRGCYC	1 cut(s)	366
Fsp4HI	GCNGC	1 cut(s)	357
FspBI	CTAG	1 cut(s)	367
GluI	GCNGC	1 cut(s)	357
HaeIII	GGCC	1 cut(s)	150
Hin1II	CATG	1 cut(s)	63
HincII	GTYRAC	1 cut(s)	144
HindII	GTYRAC	1 cut(s)	144
HinfI	GANTC	1 cut(s)	312
Hpy166II	GTNNAC	1 cut(s)	144
Hpy188III	TCNNGA	1 cut(s)	222
Hpy8I	GTNNAC	1 cut(s)	144
HpyAV	CCTTC	1 cut(s)	127
HpyCH4V	TGCA	2 cut(s)	243, 270
HpyF10VI	GCNNNNNNNGC	1 cut(s)	194
HpyF3I	CTNAG	2 cut(s)	203, 360
Hsp92II	CATG	1 cut(s)	63
Kzo9I	GATC	1 cut(s)	274
LmnI	GCTCC	1 cut(s)	136
LpnPI	CCDG	5 cut(s)	64, 132, 207, 242, 269
LweI	GCATC	3 cut(s)	184, 191, 246
MaeI	CTAG	1 cut(s)	367
MaeIII	GTNAC	1 cut(s)	251
MalI	GATC	1 cut(s)	276
MbiI	CCGCTC	1 cut(s)	139
MboI	GATC	1 cut(s)	274
MboII	GAAGA	2 cut(s)	203, 237
MflI	RGATCY	1 cut(s)	274
MhlI	GDGCHC	1 cut(s)	366
MlsI	TGGCCA	1 cut(s)	150
MluCI	AATT	2 cut(s)	110, 316
MluNI	TGGCCA	1 cut(s)	150
MlyI	GAGTC	1 cut(s)	306
MnlI	CCTC	3 cut(s)	30, 109, 300
Mox20I	TGGCCA	1 cut(s)	150
MscI	TGGCCA	1 cut(s)	150
Msp20I	TGGCCA	1 cut(s)	150
MspA1I	CMGCKG	2 cut(s)	188, 359
MspR9I	CCNGG	1 cut(s)	257
Mva1269I	GAATGC	1 cut(s)	54
MvaI	CCWGG	1 cut(s)	257
MwoI	GCNNNNNNNGC	1 cut(s)	194
NcoI	CCATGG	1 cut(s)	59
NdeII	GATC	1 cut(s)	274
NlaIII	CATG	1 cut(s)	63
NlaIV	GGNNCC	1 cut(s)	276
PctI	GAATGC	1 cut(s)	54
PkrI	GCNGC	1 cut(s)	358
PleI	GAGTC	1 cut(s)	306
PpsI	GAGTC	1 cut(s)	306
Psp124BI	GAGCTC	1 cut(s)	366
Psp6I	CCWGG	1 cut(s)	255
PspGI	CCWGG	1 cut(s)	255
PspN4I	GGNNCC	1 cut(s)	276
PsuI	RGATCY	1 cut(s)	274
PvuII	CAGCTG	2 cut(s)	188, 359
SacI	GAGCTC	1 cut(s)	366
SatI	GCNGC	1 cut(s)	357
Sau3AI	GATC	1 cut(s)	274
SchI	GAGTC	1 cut(s)	306
ScrFI	CCNGG	1 cut(s)	257
SduI	GDGCHC	1 cut(s)	366
SetI	ASST	6 cut(s)	22, 190, 204, 220, 361, 366
SfaNI	GCATC	3 cut(s)	184, 191, 246
Sse9I	AATT	2 cut(s)	110, 316
SsiI	CCGC	1 cut(s)	139
SspMI	CTAG	1 cut(s)	367
SstI	GAGCTC	1 cut(s)	366
StyD4I	CCNGG	1 cut(s)	255
StyI	CCWWGG	1 cut(s)	59
TasI	AATT	2 cut(s)	110, 316
TseI	GCWGC	1 cut(s)	356
TspDTI	ATGAA	1 cut(s)	146
XspI	CTAG	1 cut(s)	367

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