Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0001747

Physical Location & Seq

Genomic Coordinates Reverse (-)

20290541 .. 20290933

Gene Structure 393 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG130700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 393 bp

ATGGCTGAGAGAGAACAGCAGCACCAAAGTGATGCACATATGCAATCTCCAAAGGATGACATGGTGGCATGTGTGATGGCATTGGAGGCTGCTTTGCTTCCATGCTTGCCTACCAGAGAGCTTCAAGCAATAGACCATTCGCCATACCCGTCTCATCAAATTGATGTTGAGAGACATGCTAGAGATTTTATGGAAGTTGCCAAAAAGCTTCAGCTCTTTTTTGTTGGTCTGCAACGTGAGGATCTGCCCACGAATGCTGAAAAACTAAGAAAGGAGATTGTTGTGATGGAAGAGGAGTTAAAGGTAAAGAATGAGATTATCAAGAAGAATGAAAGGTTAATCCAAGGGTGGAAAATGGAGCTGAAACACCAACTTGGACAGACACATTACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0008150 GO:0016592 GO:0031974 GO:0031981 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0048831 GO:0050789 GO:0050793 GO:0051239 GO:0065007 GO:0070013 GO:1900055 GO:2000024 GO:2000026

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

No domains found.

Protein Analysis

130

Amino Acids

15.23

Weight (kDa)

5.97

Isoelectric Point (pI)

57.25

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Med28	PF11594	24 - 121	2.4e-21	Mediator complex subunit 28

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

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Orthologous Genes (Group: OG0001747)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G52860
fragaria_vesca	FvH4_2g03920 FvH4_2g03920 FvH4_4g11510 FvH4_7g29690
malus_domestica	MD05G1096300.v1.1 MD10G1102600.v1.1
prunus_persica	Prupe.8G140700_v2.0.a1 Prupe.8G140700_v2.0.a1
pyrus_communis	pycom05g09510 pycom10g08840
rosa_chinensis	RchiOBHm_Chr4g0408421 RchiOBHm_Chr6g0252941 RchiOBHm_Chr6g0252971 RchiOBHm_Chr6g0264541
rosa_laevigata	RLG00000008652
rosa_multiflora	Rmu_sc0000578.1_g000013 Rmu_sc0002560.1_g000003 Rmu_sc0016103.1_g000003 Rmu_sc0016103.1_g000007 Rmu_sc0033269.1_g000001 Rmu_ssc0000173.1_g000001
rosa_roxburghii	Rroxscaffold_5G00352890 Rroxscaffold_7G00212260
rosa_rugosa	Rorug04G0085600 Rorug04G0085700 Rorug05G0541700 Rorug05G0542300
rosa_samantha	Rh4AG150400 Rh4BG147700 Rh4CG157700 Rh4CG230800 Rh4DG143300 Rh6AG056000 Rh6AG056300 Rh6AG133100 Rh6BG050300 Rh6BG050600 Rh6BG130700 Rh6CG048700 Rh6CG128900 Rh6DG044300 Rh6DG116100 Rh7AG370500
rosa_wichuraiana	Rw0G009740 Rw4G012280 Rw6G005080 Rw6G005140

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	249
AcuI	CTGAAG	1 cut(s)	194
AgsI	TTSAA	1 cut(s)	125
AleI	CACNNNNGTG	1 cut(s)	27
AluBI	AGCT	4 cut(s)	121, 208, 214, 361
AluI	AGCT	4 cut(s)	121, 208, 214, 361
Alw26I	GTCTC	2 cut(s)	156, 166
AlwI	GGATC	1 cut(s)	249
ApeKI	GCWGC	2 cut(s)	19, 89
BbvI	GCAGC	2 cut(s)	31, 76
BccI	CCATC	2 cut(s)	70, 280
BcoDI	GTCTC	2 cut(s)	156, 166
BfaI	CTAG	1 cut(s)	180
BisI	GCNGC	2 cut(s)	20, 90
BlsI	GCNGC	2 cut(s)	21, 91
BmsI	GCATC	1 cut(s)	22
BsaJI	CCNNGG	1 cut(s)	343
BseDI	CCNNGG	1 cut(s)	343
BseGI	GGATG	1 cut(s)	61
BseRI	GAGGAG	1 cut(s)	308
BseXI	GCAGC	2 cut(s)	31, 76
BsmAI	GTCTC	2 cut(s)	156, 166
BsmBI	CGTCTC	1 cut(s)	156
BsmI	GAATGC	1 cut(s)	259
Bsp143I	GATC	1 cut(s)	241
BspPI	GGATC	1 cut(s)	249
BssECI	CCNNGG	1 cut(s)	343
BssMI	GATC	1 cut(s)	241
BssT1I	CCWWGG	1 cut(s)	343
Bst6I	CTCTTC	1 cut(s)	285
BstC8I	GCNNGC	1 cut(s)	107
BstDEI	CTNAG	2 cut(s)	6, 266
BstF5I	GGATG	1 cut(s)	61
BstKTI	GATC	1 cut(s)	244
BstMAI	GTCTC	2 cut(s)	156, 166
BstMBI	GATC	1 cut(s)	241
BstMWI	GCNNNNNNNGC	1 cut(s)	86
BstNSI	RCATGY	2 cut(s)	72, 179
BstV1I	GCAGC	2 cut(s)	31, 76
BstX2I	RGATCY	1 cut(s)	241
BstYI	RGATCY	1 cut(s)	241
BtsCI	GGATG	1 cut(s)	61
Cac8I	GCNNGC	1 cut(s)	107
CviAII	CATG	4 cut(s)	61, 69, 102, 176
CviJI	RGCY	6 cut(s)	5, 89, 121, 208, 214, 361
CviKI_1	RGCY	6 cut(s)	5, 89, 121, 208, 214, 361
DdeI	CTNAG	2 cut(s)	6, 266
DpnI	GATC	1 cut(s)	243
DpnII	GATC	1 cut(s)	241
Eam1104I	CTCTTC	1 cut(s)	285
EarI	CTCTTC	1 cut(s)	285
Eco130I	CCWWGG	1 cut(s)	343
Eco57I	CTGAAG	1 cut(s)	194
EcoT14I	CCWWGG	1 cut(s)	343
ErhI	CCWWGG	1 cut(s)	343
Esp3I	CGTCTC	1 cut(s)	156
FaeI	CATG	4 cut(s)	64, 72, 105, 179
FaiI	YATR	8 cut(s)	39, 41, 62, 70, 103, 145, 177, 191
FatI	CATG	4 cut(s)	60, 68, 101, 175
FauNDI	CATATG	1 cut(s)	39
Fnu4HI	GCNGC	2 cut(s)	20, 90
FokI	GGATG	1 cut(s)	68
Fsp4HI	GCNGC	2 cut(s)	20, 90
FspBI	CTAG	1 cut(s)	180
GluI	GCNGC	2 cut(s)	20, 90
Hin1II	CATG	4 cut(s)	64, 72, 105, 179
HindIII	AAGCTT	1 cut(s)	206
Hpy188III	TCNNGA	1 cut(s)	322
HpyCH4IV	ACGT	1 cut(s)	235
HpyCH4V	TGCA	3 cut(s)	35, 43, 232
HpyF10VI	GCNNNNNNNGC	1 cut(s)	86
HpyF3I	CTNAG	2 cut(s)	6, 266
HpySE526I	ACGT	1 cut(s)	235
Hsp92II	CATG	4 cut(s)	64, 72, 105, 179
Kzo9I	GATC	1 cut(s)	241
LmnI	GCTCC	1 cut(s)	358
LpnPI	CCDG	1 cut(s)	127
Lsp1109I	GCAGC	2 cut(s)	31, 76
LweI	GCATC	1 cut(s)	22
MaeI	CTAG	1 cut(s)	180
MaeII	ACGT	1 cut(s)	235
MalI	GATC	1 cut(s)	243
MboI	GATC	1 cut(s)	241
MboII	GAAGA	2 cut(s)	302, 337
MflI	RGATCY	1 cut(s)	241
MluCI	AATT	1 cut(s)	159
MnlI	CCTC	3 cut(s)	79, 232, 286
MseI	TTAA	2 cut(s)	299, 338
MslI	CAYNNNNRTG	1 cut(s)	27
Mva1269I	GAATGC	1 cut(s)	259
MwoI	GCNNNNNNNGC	1 cut(s)	86
NdeI	CATATG	1 cut(s)	39
NdeII	GATC	1 cut(s)	241
NlaIII	CATG	4 cut(s)	64, 72, 105, 179
NspI	RCATGY	2 cut(s)	72, 179
OliI	CACNNNNGTG	1 cut(s)	27
PcsI	WCGNNNNNNNCGW	1 cut(s)	146
PctI	GAATGC	1 cut(s)	259
PkrI	GCNGC	2 cut(s)	21, 91
PsuI	RGATCY	1 cut(s)	241
RseI	CAYNNNNRTG	1 cut(s)	27
SaqAI	TTAA	2 cut(s)	299, 338
SatI	GCNGC	2 cut(s)	20, 90
Sau3AI	GATC	1 cut(s)	241
SetI	ASST	7 cut(s)	123, 210, 216, 238, 306, 338, 363
SfaNI	GCATC	1 cut(s)	22
SmiMI	CAYNNNNRTG	1 cut(s)	27
Sse9I	AATT	1 cut(s)	159
SspMI	CTAG	1 cut(s)	180
StyI	CCWWGG	1 cut(s)	343
TaiI	ACGT	1 cut(s)	238
TasI	AATT	1 cut(s)	159
Tru1I	TTAA	2 cut(s)	299, 338
Tru9I	TTAA	2 cut(s)	299, 338
TseI	GCWGC	2 cut(s)	19, 89
TspDTI	ATGAA	1 cut(s)	345
XceI	RCATGY	2 cut(s)	72, 179
XspI	CTAG	1 cut(s)	180

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