Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0004517

Physical Location & Seq

Genomic Coordinates Forward (+)

624901 .. 629273

Gene Structure 4373 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG005500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 435 bp

ATGTCGACAAACACAAAATTCAGCGTTTACGTAGGTAGTTTGGACGAGCGGGTGAGTGATAGAGTGTTATATGATATTCTAATTCAGGCAGGGAGGGTAGTTGACCTGCACATCCCTCGAGACAAGGAAACCGACAGGCCTAAAGGTTATGCTTTTGCAGAATATGAAACTGAGGAGATTGCTGAGTATGCTGTTAGGCTTTTCTCCGGTCTTGTGACTCTCTACAATCGAACACTCAAGTTTGCGATTTCTGGGCAAGACAAGCCTTCATCTAATGTTGCTTCTACAGTAATGCCCACAACCAATTTTTCTAACAAATTGAGGTCTCCCCCTGTACCTATTAACAATGTAGAAAACTTGCAGAATTCAATGAGCTTATCAGCACCCTGCAAAATTCCAGCTTATGCAGAAACTTATCCCTCAGGTTCTCCGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0005689 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0090304 GO:1901360 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

RRM_1

Protein Analysis

144

Amino Acids

15.97

Weight (kDa)

5.83

Isoelectric Point (pI)

49.49

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	9 - 80	2e-14	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0004517)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G10110
fragaria_vesca	FvH4_2g00580 FvH4_2g00580 FvH4_3g25440 FvH4_3g25440 FvH4_3g25440 FvH4_3g25440 FvH4_3g25440 FvH4_3g25440
malus_domestica	MD10G1003200.v1.1
prunus_persica	Prupe.8G005800_v2.0.a1 Prupe.8G005800_v2.0.a1 Prupe.8G005800_v2.0.a1 Prupe.8G005800_v2.0.a1 Prupe.8G005800_v2.0.a1
pyrus_communis	pycom10g00260
rosa_chinensis	RchiOBHm_Chr6g0251031 RchiOBHm_Chr6g0280021
rosa_laevigata	RLG00000015489
rosa_multiflora	Rmu_sc0006638.1_g000018
rosa_roxburghii	Rroxscaffold_5G00349710 Rroxscaffold_7G00217110
rosa_rugosa	Rorug05G0499500 Rorug05G0499600 Rorug05G0499700 Rorug06G0244900
rosa_samantha	Rh6AG007700 Rh6BG003300 Rh6CG005200 Rh6DG005500 Rh6DG235800
rosa_wichuraiana	Rw6G000870

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	114
AccBSI	CCGCTC	1 cut(s)	49
AccI	GTMKAC	1 cut(s)	5
AciI	CCGC	1 cut(s)	49
AcsI	RAATTY	3 cut(s)	17, 364, 393
AfaI	GTAC	1 cut(s)	336
AgsI	TTSAA	1 cut(s)	369
AluBI	AGCT	2 cut(s)	375, 401
AluI	AGCT	2 cut(s)	375, 401
Alw26I	GTCTC	2 cut(s)	114, 330
Ama87I	CYCGRG	1 cut(s)	117
AoxI	GGCC	1 cut(s)	137
ApoI	RAATTY	3 cut(s)	17, 364, 393
AsuHPI	GGTGA	1 cut(s)	64
AvaI	CYCGRG	1 cut(s)	117
AxyI	CCTNAGG	1 cut(s)	421
BcgI	CGANNNNNNTGC	2 cut(s)	98, 132
BcoDI	GTCTC	2 cut(s)	114, 330
BfmI	CTRYAG	1 cut(s)	285
BfuAI	ACCTGC	1 cut(s)	114
BmeT110I	CYCGRG	1 cut(s)	117
BpuEI	CTTGAG	1 cut(s)	221
BsaAI	YACGTR	1 cut(s)	31
BsaI	GGTCTC	1 cut(s)	330
BsaWI	WCCGGW	1 cut(s)	206
Bse21I	CCTNAGG	1 cut(s)	421
BseGI	GGATG	1 cut(s)	111
BseMII	CTCAG	3 cut(s)	162, 174, 435
BseRI	GAGGAG	1 cut(s)	188
BsgI	GTGCAG	1 cut(s)	92
BshFI	GGCC	1 cut(s)	139
BsiHKCI	CYCGRG	1 cut(s)	117
BsiSI	CCGG	1 cut(s)	207
BsmAI	GTCTC	2 cut(s)	114, 330
BsnI	GGCC	1 cut(s)	139
Bso31I	GGTCTC	1 cut(s)	330
BsoBI	CYCGRG	1 cut(s)	117
BspACI	CCGC	1 cut(s)	49
BspANI	GGCC	1 cut(s)	139
BspCNI	CTCAG	3 cut(s)	163, 175, 434
BspMI	ACCTGC	1 cut(s)	114
BspTNI	GGTCTC	1 cut(s)	330
BsrBI	CCGCTC	1 cut(s)	49
Bst4CI	ACNGT	1 cut(s)	289
BstBAI	YACGTR	1 cut(s)	31
BstDEI	CTNAG	3 cut(s)	171, 183, 421
BstF5I	GGATG	1 cut(s)	111
BstMAI	GTCTC	2 cut(s)	114, 330
BstMWI	GCNNNNNNNGC	2 cut(s)	188, 262
BstSFI	CTRYAG	1 cut(s)	285
BstSNI	TACGTA	1 cut(s)	31
Bsu36I	CCTNAGG	1 cut(s)	421
BsuRI	GGCC	1 cut(s)	139
BtsCI	GGATG	1 cut(s)	111
BveI	ACCTGC	1 cut(s)	114
Csp6I	GTAC	1 cut(s)	335
CviJI	RGCY	5 cut(s)	139, 199, 265, 375, 401
CviKI_1	RGCY	5 cut(s)	139, 199, 265, 375, 401
CviQI	GTAC	1 cut(s)	335
DdeI	CTNAG	3 cut(s)	171, 183, 421
Eco105I	TACGTA	1 cut(s)	31
Eco147I	AGGCCT	1 cut(s)	139
Eco31I	GGTCTC	1 cut(s)	330
Eco81I	CCTNAGG	1 cut(s)	421
Eco88I	CYCGRG	1 cut(s)	117
EcoRI	GAATTC	1 cut(s)	364
FaiI	YATR	6 cut(s)	70, 72, 150, 165, 189, 405
FauI	CCCGC	1 cut(s)	42
FblI	GTMKAC	1 cut(s)	5
FokI	GGATG	1 cut(s)	98
HaeIII	GGCC	1 cut(s)	139
HapII	CCGG	1 cut(s)	207
HincII	GTYRAC	2 cut(s)	6, 103
HindII	GTYRAC	2 cut(s)	6, 103
HinfI	GANTC	1 cut(s)	217
HpaII	CCGG	1 cut(s)	207
HphI	GGTGA	1 cut(s)	64
Hpy166II	GTNNAC	3 cut(s)	6, 28, 103
Hpy188III	TCNNGA	1 cut(s)	119
Hpy8I	GTNNAC	3 cut(s)	6, 28, 103
HpyAV	CCTTC	1 cut(s)	276
HpyCH4III	ACNGT	1 cut(s)	289
HpyCH4IV	ACGT	1 cut(s)	30
HpyCH4V	TGCA	5 cut(s)	109, 158, 361, 390, 407
HpyF10VI	GCNNNNNNNGC	2 cut(s)	188, 262
HpyF3I	CTNAG	3 cut(s)	171, 183, 421
HpySE526I	ACGT	1 cut(s)	30
MaeII	ACGT	1 cut(s)	30
MaeIII	GTNAC	1 cut(s)	214
MbiI	CCGCTC	1 cut(s)	49
MluCI	AATT	6 cut(s)	17, 81, 304, 317, 364, 393
MlyI	GAGTC	1 cut(s)	211
MnlI	CCTC	5 cut(s)	87, 126, 166, 315, 430
MseI	TTAA	1 cut(s)	342
MspI	CCGG	1 cut(s)	207
MwoI	GCNNNNNNNGC	2 cut(s)	188, 262
NmuCI	GTSAC	1 cut(s)	214
PaeR7I	CTCGAG	1 cut(s)	117
PceI	AGGCCT	1 cut(s)	139
PleI	GAGTC	1 cut(s)	211
PpsI	GAGTC	1 cut(s)	211
Ppu21I	YACGTR	1 cut(s)	31
RsaI	GTAC	1 cut(s)	336
RsaNI	GTAC	1 cut(s)	335
SalI	GTCGAC	1 cut(s)	4
SaqAI	TTAA	1 cut(s)	342
SchI	GAGTC	1 cut(s)	211
SetI	ASST	9 cut(s)	33, 37, 108, 148, 326, 340, 377, 403, 427
SfcI	CTRYAG	1 cut(s)	285
Sfr274I	CTCGAG	1 cut(s)	117
SlaI	CTCGAG	1 cut(s)	117
SmlI	CTYRAG	2 cut(s)	117, 236
SmoI	CTYRAG	2 cut(s)	117, 236
SnaBI	TACGTA	1 cut(s)	31
Sse9I	AATT	6 cut(s)	17, 81, 304, 317, 364, 393
SseBI	AGGCCT	1 cut(s)	139
SsiI	CCGC	1 cut(s)	49
StuI	AGGCCT	1 cut(s)	139
TaaI	ACNGT	1 cut(s)	289
TaiI	ACGT	1 cut(s)	33
TaqI	TCGA	3 cut(s)	5, 118, 229
TasI	AATT	6 cut(s)	17, 81, 304, 317, 364, 393
Tru1I	TTAA	1 cut(s)	342
Tru9I	TTAA	1 cut(s)	342
TseFI	GTSAC	1 cut(s)	214
Tsp45I	GTSAC	1 cut(s)	214
TspDTI	ATGAA	2 cut(s)	180, 258
TspGWI	ACGGA	1 cut(s)	420
XapI	RAATTY	3 cut(s)	17, 364, 393
XhoI	CTCGAG	1 cut(s)	117
XmiI	GTMKAC	1 cut(s)	5

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