Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0003257

Physical Location & Seq

Genomic Coordinates Forward (+)

8304662 .. 8305128

Gene Structure 467 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG102300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 351 bp

ATGGAGCCTATGAATGCTGGGGCAAGCAGAGCTAAGCCAAAAATTTATTATGGTTCAGTTTCATTGTTCTATATCCCAAACGAAGGAGTGAAGCACCTAAAGGTTTTGAGGATGGCAGTGATTTACATGATGATGTATGTGCTGAATCTGTACGAGTACGCGAAGAAGAACTTGGGGCCTCTGAGATCGATTGTGTGGACTGTGGAGGTTGCTATGATCAATATTGTTGCTCCAATCTACTGGAGATTCAAAGGAGTGCCTGATGATTTCCTTCGTTTACTCAACATGAAGGTAAATCACTTTTATCCCTTCTTACAAGCAAAAGAAGAAATACAAATTGTATGGAAGTAA

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

116

Amino Acids

13.66

Weight (kDa)

9.66

Isoelectric Point (pI)

38.79

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
REF	PF05755	28 - 101	1.2e-20	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)	161
AcsI	RAATTY	1 cut(s)	42
AfaI	GTAC	2 cut(s)	152, 158
AfiI	CCNNNNNNNGG	1 cut(s)	83
AgsI	TTSAA	1 cut(s)	250
AjuI	GAANNNNNNNTTGG	2 cut(s)	155, 187
AluBI	AGCT	1 cut(s)	32
AluI	AGCT	1 cut(s)	32
AoxI	GGCC	1 cut(s)	176
ApoI	RAATTY	1 cut(s)	42
AspS9I	GGNCC	1 cut(s)	176
BccI	CCATC	1 cut(s)	106
BclI	TGATCA	1 cut(s)	216
BlpI	GCTNAGC	1 cut(s)	33
BmgT120I	GGNCC	1 cut(s)	176
BmiI	GGNNCC	2 cut(s)	6, 177
BpmI	CTGGAG	1 cut(s)	262
Bpu1102I	GCTNAGC	1 cut(s)	33
Bsa29I	ATCGAT	1 cut(s)	188
Bsc4I	CCNNNNNNNGG	1 cut(s)	83
Bse1I	ACTGG	1 cut(s)	245
BseCI	ATCGAT	1 cut(s)	188
BseGI	GGATG	1 cut(s)	117
BseLI	CCNNNNNNNGG	1 cut(s)	83
BseMII	CTCAG	1 cut(s)	173
BseNI	ACTGG	1 cut(s)	245
BseYI	CCCAGC	1 cut(s)	17
Bsh1236I	CGCG	1 cut(s)	161
BshFI	GGCC	1 cut(s)	178
BshVI	ATCGAT	1 cut(s)	188
BslI	CCNNNNNNNGG	1 cut(s)	83
BsmI	GAATGC	1 cut(s)	19
BsnI	GGCC	1 cut(s)	178
Bsp143I	GATC	2 cut(s)	185, 216
Bsp1720I	GCTNAGC	1 cut(s)	33
BspANI	GGCC	1 cut(s)	178
BspCNI	CTCAG	1 cut(s)	174
BspDI	ATCGAT	1 cut(s)	188
BspFNI	CGCG	1 cut(s)	161
BspLI	GGNNCC	2 cut(s)	6, 177
BsrI	ACTGG	1 cut(s)	245
BssMI	GATC	2 cut(s)	185, 216
Bst4CI	ACNGT	1 cut(s)	202
BstC8I	GCNNGC	1 cut(s)	25
BstDEI	CTNAG	2 cut(s)	33, 182
BstF5I	GGATG	1 cut(s)	117
BstFNI	CGCG	1 cut(s)	161
BstKTI	GATC	2 cut(s)	188, 219
BstMBI	GATC	2 cut(s)	185, 216
BstMWI	GCNNNNNNNGC	1 cut(s)	29
BstUI	CGCG	1 cut(s)	161
BstXI	CCANNNNNNTGG	1 cut(s)	240
Bsu15I	ATCGAT	1 cut(s)	188
BsuRI	GGCC	1 cut(s)	178
BsuTUI	ATCGAT	1 cut(s)	188
BtsCI	GGATG	1 cut(s)	117
BtsI	GCAGTG	1 cut(s)	123
BtsIMutI	CAGTG	1 cut(s)	123
Cac8I	GCNNGC	1 cut(s)	25
Cfr13I	GGNCC	1 cut(s)	176
ClaI	ATCGAT	1 cut(s)	188
Csp6I	GTAC	2 cut(s)	151, 157
CviAII	CATG	2 cut(s)	127, 286
CviJI	RGCY	4 cut(s)	7, 32, 37, 178
CviKI_1	RGCY	4 cut(s)	7, 32, 37, 178
CviQI	GTAC	2 cut(s)	151, 157
DdeI	CTNAG	2 cut(s)	33, 182
DpnI	GATC	2 cut(s)	187, 218
DpnII	GATC	2 cut(s)	185, 216
EcoO109I	RGGNCCY	1 cut(s)	176
FaeI	CATG	2 cut(s)	130, 289
FaiI	YATR	8 cut(s)	11, 51, 72, 128, 138, 215, 287, 343
FalI	AAGNNNNNCTT	2 cut(s)	155, 187
FatI	CATG	2 cut(s)	126, 285
FbaI	TGATCA	1 cut(s)	216
FokI	GGATG	1 cut(s)	124
GsaI	CCCAGC	1 cut(s)	21
GsuI	CTGGAG	1 cut(s)	262
HaeIII	GGCC	1 cut(s)	178
Hin1II	CATG	2 cut(s)	130, 289
HinfI	GANTC	2 cut(s)	145, 246
Hpy166II	GTNNAC	2 cut(s)	198, 278
Hpy188I	TCNGA	1 cut(s)	183
Hpy8I	GTNNAC	2 cut(s)	198, 278
HpyAV	CCTTC	4 cut(s)	77, 281, 283, 319
HpyCH4III	ACNGT	1 cut(s)	202
HpyF10VI	GCNNNNNNNGC	1 cut(s)	29
HpyF3I	CTNAG	2 cut(s)	33, 182
Hsp92II	CATG	2 cut(s)	130, 289
Ksp22I	TGATCA	1 cut(s)	216
Kzo9I	GATC	2 cut(s)	185, 216
LmnI	GCTCC	2 cut(s)	4, 235
LpnPI	CCDG	3 cut(s)	3, 226, 273
MalI	GATC	2 cut(s)	187, 218
MboI	GATC	2 cut(s)	185, 216
MboII	GAAGA	3 cut(s)	175, 178, 338
MluCI	AATT	2 cut(s)	42, 336
MnlI	CCTC	3 cut(s)	102, 189, 199
MslI	CAYNNNNRTG	1 cut(s)	131
Mva1269I	GAATGC	1 cut(s)	19
MvnI	CGCG	1 cut(s)	161
MwoI	GCNNNNNNNGC	1 cut(s)	29
NdeII	GATC	2 cut(s)	185, 216
NlaIII	CATG	2 cut(s)	130, 289
NlaIV	GGNNCC	2 cut(s)	6, 177
PctI	GAATGC	1 cut(s)	19
PfeI	GAWTC	2 cut(s)	145, 246
PspFI	CCCAGC	1 cut(s)	17
PspN4I	GGNNCC	2 cut(s)	6, 177
PspPI	GGNCC	1 cut(s)	176
RsaI	GTAC	2 cut(s)	152, 158
RsaNI	GTAC	2 cut(s)	151, 157
RseI	CAYNNNNRTG	1 cut(s)	131
Sau3AI	GATC	2 cut(s)	185, 216
Sau96I	GGNCC	1 cut(s)	176
SetI	ASST	5 cut(s)	34, 99, 105, 210, 294
SmiMI	CAYNNNNRTG	1 cut(s)	131
Sse9I	AATT	2 cut(s)	42, 336
SspI	AATATT	1 cut(s)	223
TaaI	ACNGT	1 cut(s)	202
TaqI	TCGA	1 cut(s)	188
TasI	AATT	2 cut(s)	42, 336
TfiI	GAWTC	2 cut(s)	145, 246
TscAI	CASTG	1 cut(s)	123
TspDTI	ATGAA	3 cut(s)	26, 51, 302
TspRI	CASTG	1 cut(s)	123
XapI	RAATTY	1 cut(s)	42

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