Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0001003

Physical Location & Seq

Genomic Coordinates Reverse (-)

6333076 .. 6334345

Gene Structure 1270 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG074900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 225 bp

ATGGACAAGCTTGACACCGTCTTCAGCTGTCCCTTCTGTGGCCACGGCTCCAGTGTCGAATGCCGCATTGATATGAAGAACTTGATCGGGGAAGCCAGTTGCAGAATATGCCAAGAAAGCTTCAGCACAACTGTCAATGCTTTGTCTGAAGCAATAGACATCTACAGTGAATGGATTGATGAATGTGAACGGGTTAACCATCTCGAAGATGATGGTGATGCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000993 GO:0001098 GO:0001099 GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006139 GO:0006325 GO:0006338 GO:0006351 GO:0006354 GO:0006355 GO:0006366 GO:0006368 GO:0006725 GO:0006807 GO:0006996 GO:0008023 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0016043 GO:0016070 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0019899 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0040029 GO:0043170 GO:0043175 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0044877 GO:0045815 GO:0045893 GO:0045935 GO:0046483 GO:0048096 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0051276 GO:0060255 GO:0065007 GO:0070013 GO:0070063 GO:0071704 GO:0071840 GO:0080090 GO:0090304 GO:0097659 GO:1901360 GO:1901362 GO:1901576 GO:1902680 GO:1903506 GO:1903508 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Elf1

Protein Analysis

74

Amino Acids

8.25

Weight (kDa)

4.15

Isoelectric Point (pI)

41.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Zn_ribbon_Elf1	PF05129	2 - 63	3.8e-27	Transcription elongation factor Elf1 like

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Image

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Publication-ready

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Orthologous Genes (Group: OG0001003)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G46030 AT5G46030 AT5G46030
fragaria_vesca	FvH4_3g08380 FvH4_3g08380 FvH4_3g08380 FvH4_3g08380 FvH4_3g08380 FvH4_3g08380 FvH4_3g19110 FvH4_3g43700
malus_domestica	MD03G1236500.v1.1 MD05G1271300.v1.1 MD05G1308200.v1.1 MD06G1020300.v1.1 MD10G1287200.v1.1 MD11G1257300.v1.1
prunus_persica	Prupe.2G137500_v2.0.a1 Prupe.2G137800_v2.0.a1 Prupe.2G141500_v2.0.a1 Prupe.2G141600_v2.0.a1 Prupe.4G054600_v2.0.a1 Prupe.4G172800_v2.0.a1 Prupe.4G172800_v2.0.a1 Prupe.4G172800_v2.0.a1
pyrus_communis	pycom05g28490
rosa_chinensis	RchiOBHm_Chr4g0445711 RchiOBHm_Chr5g0009521 RchiOBHm_Chr5g0031911 RchiOBHm_Chr5g0078351
rosa_laevigata	RLG00000036769
rosa_multiflora	Rmu_sc0000335.1_g000042 Rmu_sc0001124.1_g000026 Rmu_sc0002711.1_g000002 Rmu_sc0005375.1_g000025
rosa_roxburghii	Rroxscaffold_1G00048350 Rroxscaffold_1G00066610 Rroxscaffold_1G00067310 Rroxscaffold_5G00386200
rosa_rugosa	Rorug04G0365100 Rorug04G0444100 Rorug05G0129100 Rorug05G0460300
rosa_samantha	Rh4AG426000 Rh4CG453000 Rh4DG434200 Rh5AG074900 Rh5AG075500 Rh5AG223100 Rh5AG514200 Rh5BG070700 Rh5BG223200 Rh5BG537100 Rh5CG083400 Rh5CG246400 Rh5CG560600 Rh5DG071100 Rh5DG228100
rosa_wichuraiana	Rw5G006940 Rw5G006960 Rw5G020320 Rw5G047740

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	64
AcoI	YGGCCR	1 cut(s)	40
AcuI	CTGAAG	3 cut(s)	7, 106, 168
AfiI	CCNNNNNNNGG	1 cut(s)	38
AluBI	AGCT	3 cut(s)	10, 27, 120
AluI	AGCT	3 cut(s)	10, 27, 120
AoxI	GGCC	1 cut(s)	40
BalI	TGGCCA	1 cut(s)	42
BbsI	GAAGAC	1 cut(s)	13
BccI	CCATC	2 cut(s)	206, 207
BceAI	ACGGC	1 cut(s)	61
BfmI	CTRYAG	1 cut(s)	163
BisI	GCNGC	1 cut(s)	64
BlsI	GCNGC	1 cut(s)	65
BmiI	GGNNCC	1 cut(s)	49
BmsI	GCATC	1 cut(s)	208
BpiI	GAAGAC	1 cut(s)	13
BpmI	CTGGAG	1 cut(s)	34
BsaJI	CCNNGG	1 cut(s)	43
Bsc4I	CCNNNNNNNGG	1 cut(s)	38
Bse1I	ACTGG	2 cut(s)	51, 96
BseDI	CCNNGG	1 cut(s)	43
BseLI	CCNNNNNNNGG	1 cut(s)	38
BseNI	ACTGG	2 cut(s)	51, 96
BshFI	GGCC	1 cut(s)	42
BslFI	GGGAC	1 cut(s)	15
BslI	CCNNNNNNNGG	1 cut(s)	38
BsmFI	GGGAC	1 cut(s)	15
BsmI	GAATGC	1 cut(s)	65
BsnI	GGCC	1 cut(s)	42
Bsp143I	GATC	1 cut(s)	84
BspACI	CCGC	1 cut(s)	64
BspANI	GGCC	1 cut(s)	42
BspLI	GGNNCC	1 cut(s)	49
BsrI	ACTGG	2 cut(s)	51, 96
BssECI	CCNNGG	1 cut(s)	43
BssMI	GATC	1 cut(s)	84
Bst4CI	ACNGT	3 cut(s)	19, 133, 167
BstAPI	GCANNNNNTGC	1 cut(s)	108
BstDSI	CCRYGG	1 cut(s)	43
BstKTI	GATC	1 cut(s)	87
BstMBI	GATC	1 cut(s)	84
BstMWI	GCNNNNNNNGC	2 cut(s)	108, 117
BstSFI	CTRYAG	1 cut(s)	163
BstV2I	GAAGAC	1 cut(s)	13
BsuRI	GGCC	1 cut(s)	42
BtgI	CCRYGG	1 cut(s)	43
BtsIMutI	CAGTG	2 cut(s)	58, 172
CviJI	RGCY	6 cut(s)	10, 27, 42, 48, 95, 120
CviKI_1	RGCY	6 cut(s)	10, 27, 42, 48, 95, 120
DpnI	GATC	1 cut(s)	86
DpnII	GATC	1 cut(s)	84
EaeI	YGGCCR	1 cut(s)	40
Eco57I	CTGAAG	3 cut(s)	7, 106, 168
FaiI	YATR	2 cut(s)	74, 109
FaqI	GGGAC	1 cut(s)	15
Fnu4HI	GCNGC	1 cut(s)	64
Fsp4HI	GCNGC	1 cut(s)	64
GluI	GCNGC	1 cut(s)	64
GsuI	CTGGAG	1 cut(s)	34
HaeIII	GGCC	1 cut(s)	42
HincII	GTYRAC	1 cut(s)	196
HindII	GTYRAC	1 cut(s)	196
HindIII	AAGCTT	2 cut(s)	8, 118
HpaI	GTTAAC	1 cut(s)	196
Hpy166II	GTNNAC	2 cut(s)	188, 196
Hpy188I	TCNGA	1 cut(s)	148
Hpy188III	TCNNGA	1 cut(s)	203
Hpy8I	GTNNAC	2 cut(s)	188, 196
HpyAV	CCTTC	1 cut(s)	43
HpyCH4III	ACNGT	3 cut(s)	19, 133, 167
HpyCH4V	TGCA	1 cut(s)	102
HpyF10VI	GCNNNNNNNGC	2 cut(s)	108, 117
KspAI	GTTAAC	1 cut(s)	196
Kzo9I	GATC	1 cut(s)	84
LmnI	GCTCC	1 cut(s)	53
LpnPI	CCDG	2 cut(s)	64, 109
LweI	GCATC	1 cut(s)	208
MalI	GATC	1 cut(s)	86
MboI	GATC	1 cut(s)	84
MboII	GAAGA	3 cut(s)	13, 88, 218
MlsI	TGGCCA	1 cut(s)	42
MluNI	TGGCCA	1 cut(s)	42
Mox20I	TGGCCA	1 cut(s)	42
MscI	TGGCCA	1 cut(s)	42
MseI	TTAA	2 cut(s)	195, 223
MslI	CAYNNNNRTG	1 cut(s)	71
Msp20I	TGGCCA	1 cut(s)	42
MspA1I	CMGCKG	1 cut(s)	27
Mva1269I	GAATGC	1 cut(s)	65
MwoI	GCNNNNNNNGC	2 cut(s)	108, 117
NdeII	GATC	1 cut(s)	84
NlaIV	GGNNCC	1 cut(s)	49
PctI	GAATGC	1 cut(s)	65
PflFI	GACNNNGTC	1 cut(s)	17
PkrI	GCNGC	1 cut(s)	65
PspN4I	GGNNCC	1 cut(s)	49
PsyI	GACNNNGTC	1 cut(s)	17
PvuII	CAGCTG	1 cut(s)	27
RseI	CAYNNNNRTG	1 cut(s)	71
SaqAI	TTAA	2 cut(s)	195, 223
SatI	GCNGC	1 cut(s)	64
Sau3AI	GATC	1 cut(s)	84
SetI	ASST	3 cut(s)	12, 29, 122
SfaNI	GCATC	1 cut(s)	208
SfcI	CTRYAG	1 cut(s)	163
SmiMI	CAYNNNNRTG	1 cut(s)	71
SsiI	CCGC	1 cut(s)	64
TaaI	ACNGT	3 cut(s)	19, 133, 167
TaqI	TCGA	2 cut(s)	57, 204
TauI	GCSGC	1 cut(s)	66
Tru1I	TTAA	2 cut(s)	195, 223
Tru9I	TTAA	2 cut(s)	195, 223
TscAI	CASTG	2 cut(s)	58, 172
TspDTI	ATGAA	2 cut(s)	89, 195
TspRI	CASTG	2 cut(s)	58, 172
Tth111I	GACNNNGTC	1 cut(s)	17

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