Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0003257

Physical Location & Seq

Genomic Coordinates Forward (+)

13759687 .. 13761414

Gene Structure 1728 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00229270.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 354 bp

ATGTTCAAAAAAGAGTTTGACAGCAGGTATGTGGGATTTATGAAGGATGGAGCCAAGTGGTTGGTGGAGAACACTAAAATCCTTCTTTGTATGCAGCTATCTCCGAAGGAGTTGAAGCACCTGAAGCTTTTGAGGATGGCAGTGATTTACATAGTGATGTTTGTGTTGAATCTGTACGAGTACGCGAAGAAGAACTTGGGGCATTTGAGATCAATTGTGTGGACTGTGGAGGTTGCTATGATCAATTTTGTTGCTCTAATCTACCGGAGATTCGAAGGAGTGCCTGATGATTTCCTTGGTTTACTCGACCCGAAGGTAAATCACTCTTATCCCTTCTTACATATAGTTATATAA

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

117

Amino Acids

13.82

Weight (kDa)

9.38

Isoelectric Point (pI)

30.13

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
REF	PF05755	35 - 109	4.6e-19	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)
Acc36I	ACCTGC	1 cut(s)	15
AccII	CGCG	1 cut(s)	185
AcuI	CTGAAG	1 cut(s)	143
AfaI	GTAC	2 cut(s)	176, 182
AgsI	TTSAA	3 cut(s)	7, 115, 169
AjuI	GAANNNNNNNTTGG	2 cut(s)	179, 211
AluBI	AGCT	2 cut(s)	97, 127
AluI	AGCT	2 cut(s)	97, 127
ApeKI	GCWGC	1 cut(s)	94
AsuII	TTCGAA	1 cut(s)	273
BbvI	GCAGC	1 cut(s)	106
BccI	CCATC	2 cut(s)	41, 130
BclI	TGATCA	1 cut(s)	240
BfuAI	ACCTGC	1 cut(s)	15
BisI	GCNGC	1 cut(s)	95
BlsI	GCNGC	1 cut(s)	96
BmiI	GGNNCC	1 cut(s)	52
Bpu14I	TTCGAA	1 cut(s)	273
BsaJI	CCNNGG	1 cut(s)	295
BsaWI	WCCGGW	1 cut(s)	264
BseDI	CCNNGG	1 cut(s)	295
BseGI	GGATG	2 cut(s)	52, 141
BseXI	GCAGC	1 cut(s)	106
Bsh1236I	CGCG	1 cut(s)	185
BsiSI	CCGG	1 cut(s)	265
Bsp119I	TTCGAA	1 cut(s)	273
Bsp143I	GATC	2 cut(s)	209, 240
BspFNI	CGCG	1 cut(s)	185
BspLI	GGNNCC	1 cut(s)	52
BspMI	ACCTGC	1 cut(s)	15
BspT104I	TTCGAA	1 cut(s)	273
BssECI	CCNNGG	1 cut(s)	295
BssMI	GATC	2 cut(s)	209, 240
BssT1I	CCWWGG	1 cut(s)	295
Bst4CI	ACNGT	1 cut(s)	226
BstBI	TTCGAA	1 cut(s)	273
BstF5I	GGATG	2 cut(s)	52, 141
BstFNI	CGCG	1 cut(s)	185
BstKTI	GATC	2 cut(s)	212, 243
BstMBI	GATC	2 cut(s)	209, 240
BstMWI	GCNNNNNNNGC	1 cut(s)	124
BstUI	CGCG	1 cut(s)	185
BstV1I	GCAGC	1 cut(s)	106
BstXI	CCANNNNNNTGG	1 cut(s)	61
BtsCI	GGATG	2 cut(s)	52, 141
BtsI	GCAGTG	1 cut(s)	147
BtsIMutI	CAGTG	1 cut(s)	147
BveI	ACCTGC	1 cut(s)	15
Csp6I	GTAC	2 cut(s)	175, 181
CviJI	RGCY	3 cut(s)	53, 97, 127
CviKI_1	RGCY	3 cut(s)	53, 97, 127
CviQI	GTAC	2 cut(s)	175, 181
DpnI	GATC	2 cut(s)	211, 242
DpnII	GATC	2 cut(s)	209, 240
Eco130I	CCWWGG	1 cut(s)	295
Eco57I	CTGAAG	1 cut(s)	143
EcoT14I	CCWWGG	1 cut(s)	295
ErhI	CCWWGG	1 cut(s)	295
FaiI	YATR	9 cut(s)	30, 41, 92, 152, 239, 342, 344, 350, 352
FalI	AAGNNNNNCTT	2 cut(s)	179, 211
FbaI	TGATCA	1 cut(s)	240
Fnu4HI	GCNGC	1 cut(s)	95
FokI	GGATG	2 cut(s)	59, 148
Fsp4HI	GCNGC	1 cut(s)	95
GluI	GCNGC	1 cut(s)	95
HapII	CCGG	1 cut(s)	265
HindIII	AAGCTT	1 cut(s)	125
HinfI	GANTC	2 cut(s)	169, 270
HpaII	CCGG	1 cut(s)	265
Hpy166II	GTNNAC	2 cut(s)	222, 302
Hpy188I	TCNGA	1 cut(s)	105
Hpy8I	GTNNAC	2 cut(s)	222, 302
HpyAV	CCTTC	6 cut(s)	37, 92, 100, 269, 307, 343
HpyCH4III	ACNGT	1 cut(s)	226
HpyCH4V	TGCA	1 cut(s)	94
HpyF10VI	GCNNNNNNNGC	1 cut(s)	124
Ksp22I	TGATCA	1 cut(s)	240
Kzo9I	GATC	2 cut(s)	209, 240
LmnI	GCTCC	1 cut(s)	50
LpnPI	CCDG	4 cut(s)	10, 134, 278, 297
Lsp1109I	GCAGC	1 cut(s)	106
MalI	GATC	2 cut(s)	211, 242
MboI	GATC	2 cut(s)	209, 240
MboII	GAAGA	2 cut(s)	199, 202
MfeI	CAATTG	1 cut(s)	213
MluCI	AATT	2 cut(s)	213, 244
MnlI	CCTC	2 cut(s)	126, 223
MslI	CAYNNNNRTG	1 cut(s)	155
MspI	CCGG	1 cut(s)	265
MunI	CAATTG	1 cut(s)	213
MvnI	CGCG	1 cut(s)	185
MwoI	GCNNNNNNNGC	1 cut(s)	124
NdeII	GATC	2 cut(s)	209, 240
NlaIV	GGNNCC	1 cut(s)	52
NspV	TTCGAA	1 cut(s)	273
PfeI	GAWTC	2 cut(s)	169, 270
PkrI	GCNGC	1 cut(s)	96
PspN4I	GGNNCC	1 cut(s)	52
RsaI	GTAC	2 cut(s)	176, 182
RsaNI	GTAC	2 cut(s)	175, 181
RseI	CAYNNNNRTG	1 cut(s)	155
SatI	GCNGC	1 cut(s)	95
Sau3AI	GATC	2 cut(s)	209, 240
SetI	ASST	6 cut(s)	29, 99, 123, 129, 234, 318
SfuI	TTCGAA	1 cut(s)	273
SmiMI	CAYNNNNRTG	1 cut(s)	155
Sse9I	AATT	2 cut(s)	213, 244
StyI	CCWWGG	1 cut(s)	295
TaaI	ACNGT	1 cut(s)	226
TaqI	TCGA	2 cut(s)	273, 306
TasI	AATT	2 cut(s)	213, 244
TfiI	GAWTC	2 cut(s)	169, 270
TscAI	CASTG	1 cut(s)	147
TseI	GCWGC	1 cut(s)	94
TspDTI	ATGAA	1 cut(s)	56
TspRI	CASTG	1 cut(s)	147
XcmI	CCANNNNNNNNNTGG	1 cut(s)	61

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