Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0003257

Physical Location & Seq

Genomic Coordinates Reverse (-)

74961110 .. 74961906

Gene Structure 797 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG474200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 345 bp

ATGGATCCTATGAATGCTGGGGCAAGTAGAGCTAAGAAGGAGTTGAAGCACCTGAATGTTTTGGGGATGGCAGTGATTTACATGATGAAGTGTGTGCTGAATCTGTACAATTACGCGAAGAAGAACTTGGGGCCTCTGAGATTGATTGTGTGGACTGCGGAGGTTGCTATGATCAATATTATTGCTCCAATTTACTGGAGATTCAAAGGAGTGCCTGATGATTTCTTGGTTTACTCAACACGAAGGTTTAGATTTAAAGGTTGTTTTGTTGTAAGAAAGGATGTGCTTGTGACTGCTATGTTTGGATATAAACTTAGACCTGGATTATGCTTAATTGCAAAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005773 GO:0005783 GO:0005811 GO:0006996 GO:0007275 GO:0008150 GO:0009555 GO:0009987 GO:0012505 GO:0016043 GO:0032501 GO:0032502 GO:0034389 GO:0040007 GO:0040008 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044424 GO:0044444 GO:0044464 GO:0045927 GO:0048229 GO:0048518 GO:0048583 GO:0048584 GO:0048589 GO:0048856 GO:0050789 GO:0065007 GO:0071840 GO:0080134 GO:0080186 GO:1902584 GO:2000070

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

REF

Protein Analysis

114

Amino Acids

13.11

Weight (kDa)

10.07

Isoelectric Point (pI)

23.25

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
REF	PF05755	11 - 79	1.2e-17	Rubber elongation factor protein (REF)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0003257)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G08340 AT5G08340 AT5G23330
fragaria_vesca	FvH4_4g37140
malus_domestica	MD13G1003200.v1.1 MD16G1004200.v1.1
prunus_persica	Prupe.1G349200_v2.0.a1 Prupe.1G349200_v2.0.a1 Prupe.1G349200_v2.0.a1 Prupe.1G349200_v2.0.a1
pyrus_communis	pycom13g00270 pycom16g00180
rosa_chinensis	RchiOBHm_Chr2g0144991 RchiOBHm_Chr4g0446941 RchiOBHm_Chr5g0081501 RchiOBHm_Chr6g0272191 RchiOBHm_Chr7g0231651
rosa_laevigata	RLG00000001051 RLG00000020160 RLG00000035583 RLG00000035993
rosa_multiflora	Rmu_co8227451.1_g000001 Rmu_sc0000015.1_g000048 Rmu_sc0002784.1_g000009
rosa_roxburghii	Rroxscaffold_3G00229270 Rroxscaffold_3G00237760
rosa_rugosa	Rorug01G0193900 Rorug01G0194000
rosa_samantha	Rh2DG102300 Rh4AG437800 Rh4BG446700 Rh4CG464000 Rh4DG445400 Rh5AG442200 Rh5DG474200 Rh6BG133900
rosa_wichuraiana	Rw4G037440

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	116
AciI	CCGC	1 cut(s)	158
AclWI	GGATC	1 cut(s)	12
AfaI	GTAC	1 cut(s)	107
AgsI	TTSAA	2 cut(s)	46, 205
AjnI	CCWGG	1 cut(s)	319
AjuI	GAANNNNNNNTTGG	2 cut(s)	110, 142
AluBI	AGCT	1 cut(s)	32
AluI	AGCT	1 cut(s)	32
AlwI	GGATC	1 cut(s)	12
AoxI	GGCC	1 cut(s)	131
AspS9I	GGNCC	1 cut(s)	131
BamHI	GGATCC	1 cut(s)	4
BccI	CCATC	1 cut(s)	61
BciT130I	CCWGG	1 cut(s)	321
BclI	TGATCA	1 cut(s)	171
Bme1390I	CCNGG	1 cut(s)	321
BmgT120I	GGNCC	1 cut(s)	131
BmiI	GGNNCC	2 cut(s)	6, 132
BmrFI	CCNGG	1 cut(s)	321
BpmI	CTGGAG	1 cut(s)	217
Bse1I	ACTGG	1 cut(s)	200
BseBI	CCWGG	1 cut(s)	321
BseGI	GGATG	2 cut(s)	72, 286
BseMII	CTCAG	1 cut(s)	128
BseNI	ACTGG	1 cut(s)	200
BseYI	CCCAGC	1 cut(s)	17
Bsh1236I	CGCG	1 cut(s)	116
BshFI	GGCC	1 cut(s)	133
BsmI	GAATGC	1 cut(s)	19
BsnI	GGCC	1 cut(s)	133
Bsp1407I	TGTACA	1 cut(s)	105
Bsp143I	GATC	2 cut(s)	4, 171
BspACI	CCGC	1 cut(s)	158
BspANI	GGCC	1 cut(s)	133
BspCNI	CTCAG	1 cut(s)	129
BspFNI	CGCG	1 cut(s)	116
BspLI	GGNNCC	2 cut(s)	6, 132
BspPI	GGATC	1 cut(s)	12
BsrGI	TGTACA	1 cut(s)	105
BsrI	ACTGG	1 cut(s)	200
BssMI	GATC	2 cut(s)	4, 171
Bst2UI	CCWGG	1 cut(s)	321
BstAUI	TGTACA	1 cut(s)	105
BstDEI	CTNAG	3 cut(s)	33, 137, 314
BstF5I	GGATG	2 cut(s)	72, 286
BstFNI	CGCG	1 cut(s)	116
BstKTI	GATC	2 cut(s)	7, 174
BstMBI	GATC	2 cut(s)	4, 171
BstMWI	GCNNNNNNNGC	2 cut(s)	29, 164
BstNI	CCWGG	1 cut(s)	321
BstSCI	CCNGG	1 cut(s)	319
BstUI	CGCG	1 cut(s)	116
BstX2I	RGATCY	1 cut(s)	4
BstXI	CCANNNNNNTGG	1 cut(s)	195
BstYI	RGATCY	1 cut(s)	4
BsuRI	GGCC	1 cut(s)	133
BtsCI	GGATG	2 cut(s)	72, 286
BtsI	GCAGTG	1 cut(s)	78
BtsIMutI	CAGTG	1 cut(s)	78
Cfr13I	GGNCC	1 cut(s)	131
Csp6I	GTAC	1 cut(s)	106
CviAII	CATG	1 cut(s)	82
CviJI	RGCY	2 cut(s)	32, 133
CviKI_1	RGCY	2 cut(s)	32, 133
CviQI	GTAC	1 cut(s)	106
DdeI	CTNAG	3 cut(s)	33, 137, 314
DpnI	GATC	2 cut(s)	6, 173
DpnII	GATC	2 cut(s)	4, 171
DraI	TTTAAA	1 cut(s)	256
EcoO109I	RGGNCCY	1 cut(s)	131
EcoRII	CCWGG	1 cut(s)	319
FaeI	CATG	1 cut(s)	85
FaiI	YATR	6 cut(s)	11, 83, 170, 299, 309, 328
FalI	AAGNNNNNCTT	2 cut(s)	110, 142
FatI	CATG	1 cut(s)	81
FbaI	TGATCA	1 cut(s)	171
FokI	GGATG	2 cut(s)	79, 293
GsaI	CCCAGC	1 cut(s)	21
GsuI	CTGGAG	1 cut(s)	217
HaeIII	GGCC	1 cut(s)	133
Hin1II	CATG	1 cut(s)	85
HinfI	GANTC	2 cut(s)	100, 201
Hpy166II	GTNNAC	2 cut(s)	153, 232
Hpy188I	TCNGA	1 cut(s)	138
Hpy8I	GTNNAC	2 cut(s)	153, 232
HpyAV	CCTTC	2 cut(s)	31, 237
HpyCH4V	TGCA	1 cut(s)	338
HpyF10VI	GCNNNNNNNGC	2 cut(s)	29, 164
HpyF3I	CTNAG	3 cut(s)	33, 137, 314
Hsp92II	CATG	1 cut(s)	85
Ksp22I	TGATCA	1 cut(s)	171
Kzo9I	GATC	2 cut(s)	4, 171
LmnI	GCTCC	1 cut(s)	190
LpnPI	CCDG	6 cut(s)	3, 65, 181, 228, 306, 333
MaeIII	GTNAC	1 cut(s)	289
MalI	GATC	2 cut(s)	6, 173
MboI	GATC	2 cut(s)	4, 171
MboII	GAAGA	2 cut(s)	130, 133
MflI	RGATCY	1 cut(s)	4
MluCI	AATT	3 cut(s)	109, 189, 333
MnlI	CCTC	2 cut(s)	144, 154
MseI	TTAA	2 cut(s)	255, 332
MslI	CAYNNNNRTG	1 cut(s)	54
MspR9I	CCNGG	1 cut(s)	321
Mva1269I	GAATGC	1 cut(s)	19
MvaI	CCWGG	1 cut(s)	321
MvnI	CGCG	1 cut(s)	116
MwoI	GCNNNNNNNGC	2 cut(s)	29, 164
NdeII	GATC	2 cut(s)	4, 171
NlaIII	CATG	1 cut(s)	85
NlaIV	GGNNCC	2 cut(s)	6, 132
NmuCI	GTSAC	1 cut(s)	289
PctI	GAATGC	1 cut(s)	19
PfeI	GAWTC	2 cut(s)	100, 201
Psp6I	CCWGG	1 cut(s)	319
PspFI	CCCAGC	1 cut(s)	17
PspGI	CCWGG	1 cut(s)	319
PspN4I	GGNNCC	2 cut(s)	6, 132
PspPI	GGNCC	1 cut(s)	131
PsuI	RGATCY	1 cut(s)	4
RsaI	GTAC	1 cut(s)	107
RsaNI	GTAC	1 cut(s)	106
RseI	CAYNNNNRTG	1 cut(s)	54
SaqAI	TTAA	2 cut(s)	255, 332
Sau3AI	GATC	2 cut(s)	4, 171
Sau96I	GGNCC	1 cut(s)	131
ScrFI	CCNGG	1 cut(s)	321
SetI	ASST	6 cut(s)	34, 54, 165, 248, 262, 322
SmiMI	CAYNNNNRTG	1 cut(s)	54
Sse9I	AATT	3 cut(s)	109, 189, 333
SsiI	CCGC	1 cut(s)	158
SspI	AATATT	1 cut(s)	178
StyD4I	CCNGG	1 cut(s)	319
TasI	AATT	3 cut(s)	109, 189, 333
TatI	WGTACW	1 cut(s)	105
TfiI	GAWTC	2 cut(s)	100, 201
Tru1I	TTAA	2 cut(s)	255, 332
Tru9I	TTAA	2 cut(s)	255, 332
TscAI	CASTG	1 cut(s)	78
TseFI	GTSAC	1 cut(s)	289
Tsp45I	GTSAC	1 cut(s)	289
TspDTI	ATGAA	2 cut(s)	26, 101
TspRI	CASTG	1 cut(s)	78

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