Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0001747

Physical Location & Seq

Genomic Coordinates Reverse (-)

4824434 .. 4826290

Gene Structure 1857 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG048700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 408 bp

ATGGCTGAGAGAGAACAGCAGCACCAAAGTGATGCACAGATGCAATCTCCAAAGGATGACATGGTGGCATGTGTGATGGCATTGGAGGCTGCTTTGCTTCCATGCTTGCCTGCCAGAGAGCTTCAAGCAATAGACCGTTCACCGCACCCGTCTCATCAGATTGATGTTGAGAGACATGCCAGAGATTTTATGGAAGCTGCCAAAAAGCTTCAGCTCTATTTTATTGGTCTGCAACGTGAGGATCTGCCCACGAATGCTGAAAAACTCAGAAAGGAGATTGCTGTGATGGAAGAGGAGTTGAAGGTAAAGAATGAGATTATCAAGAAGAATGAAAGGTTAATCCAAGGGTGGAAAAAGGAGCTGAAAGACCAATTGGACAGACACAATACTGAGCTCGAGAAAGTGTAG

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

135

Amino Acids

15.76

Weight (kDa)

5.77

Isoelectric Point (pI)

57.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Med28	PF11594	24 - 121	9.9e-24	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)
AciI	CCGC	1 cut(s)	143
AclWI	GGATC	1 cut(s)	249
AcuI	CTGAAG	1 cut(s)	194
AgsI	TTSAA	2 cut(s)	125, 301
AjuI	GAANNNNNNNTTGG	2 cut(s)	356, 388
AleI	CACNNNNGTG	1 cut(s)	27
AluBI	AGCT	6 cut(s)	121, 197, 208, 214, 361, 394
AluI	AGCT	6 cut(s)	121, 197, 208, 214, 361, 394
Alw21I	GWGCWC	1 cut(s)	396
Alw26I	GTCTC	2 cut(s)	156, 166
AlwI	GGATC	1 cut(s)	249
Ama87I	CYCGRG	1 cut(s)	395
ApeKI	GCWGC	3 cut(s)	19, 89, 197
AsuHPI	GGTGA	1 cut(s)	132
AvaI	CYCGRG	1 cut(s)	395
BanII	GRGCYC	1 cut(s)	396
Bbv12I	GWGCWC	1 cut(s)	396
BbvI	GCAGC	3 cut(s)	31, 76, 184
BccI	CCATC	2 cut(s)	70, 280
BcoDI	GTCTC	2 cut(s)	156, 166
BisI	GCNGC	3 cut(s)	20, 90, 198
BlsI	GCNGC	3 cut(s)	21, 91, 199
BmeT110I	CYCGRG	1 cut(s)	395
BmsI	GCATC	2 cut(s)	22, 30
BsaJI	CCNNGG	1 cut(s)	343
BseDI	CCNNGG	1 cut(s)	343
BseGI	GGATG	1 cut(s)	61
BseMII	CTCAG	2 cut(s)	280, 381
BseRI	GAGGAG	1 cut(s)	308
BseXI	GCAGC	3 cut(s)	31, 76, 184
BsiHKAI	GWGCWC	1 cut(s)	396
BsiHKCI	CYCGRG	1 cut(s)	395
BsmAI	GTCTC	2 cut(s)	156, 166
BsmBI	CGTCTC	1 cut(s)	156
BsmI	GAATGC	1 cut(s)	259
BsoBI	CYCGRG	1 cut(s)	395
Bsp1286I	GDGCHC	1 cut(s)	396
Bsp143I	GATC	1 cut(s)	241
BspACI	CCGC	1 cut(s)	143
BspCNI	CTCAG	2 cut(s)	279, 382
BspPI	GGATC	1 cut(s)	249
BssECI	CCNNGG	1 cut(s)	343
BssMI	GATC	1 cut(s)	241
BssT1I	CCWWGG	1 cut(s)	343
Bst4CI	ACNGT	1 cut(s)	137
Bst6I	CTCTTC	1 cut(s)	285
BstC8I	GCNNGC	2 cut(s)	107, 111
BstDEI	CTNAG	3 cut(s)	6, 266, 390
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	3 cut(s)	31, 76, 184
BstX2I	RGATCY	1 cut(s)	241
BstYI	RGATCY	1 cut(s)	241
BtsCI	GGATG	1 cut(s)	61
Cac8I	GCNNGC	2 cut(s)	107, 111
CviAII	CATG	4 cut(s)	61, 69, 102, 176
CviJI	RGCY	8 cut(s)	5, 89, 121, 197, 208, 214, 361, 394
CviKI_1	RGCY	8 cut(s)	5, 89, 121, 197, 208, 214, 361, 394
DdeI	CTNAG	3 cut(s)	6, 266, 390
DpnI	GATC	1 cut(s)	243
DpnII	GATC	1 cut(s)	241
Eam1104I	CTCTTC	1 cut(s)	285
EarI	CTCTTC	1 cut(s)	285
Ecl136II	GAGCTC	1 cut(s)	394
Eco130I	CCWWGG	1 cut(s)	343
Eco24I	GRGCYC	1 cut(s)	396
Eco53kI	GAGCTC	1 cut(s)	394
Eco57I	CTGAAG	1 cut(s)	194
Eco88I	CYCGRG	1 cut(s)	395
EcoICRI	GAGCTC	1 cut(s)	394
EcoT14I	CCWWGG	1 cut(s)	343
EcoT38I	GRGCYC	1 cut(s)	396
ErhI	CCWWGG	1 cut(s)	343
Esp3I	CGTCTC	1 cut(s)	156
FaeI	CATG	4 cut(s)	64, 72, 105, 179
FaiI	YATR	5 cut(s)	62, 70, 103, 177, 191
FatI	CATG	4 cut(s)	60, 68, 101, 175
Fnu4HI	GCNGC	3 cut(s)	20, 90, 198
FokI	GGATG	1 cut(s)	68
FriOI	GRGCYC	1 cut(s)	396
Fsp4HI	GCNGC	3 cut(s)	20, 90, 198
GluI	GCNGC	3 cut(s)	20, 90, 198
Hin1II	CATG	4 cut(s)	64, 72, 105, 179
HindIII	AAGCTT	1 cut(s)	206
HphI	GGTGA	1 cut(s)	132
Hpy166II	GTNNAC	1 cut(s)	140
Hpy188I	TCNGA	2 cut(s)	159, 269
Hpy188III	TCNNGA	2 cut(s)	322, 397
Hpy8I	GTNNAC	1 cut(s)	140
HpyAV	CCTTC	1 cut(s)	295
HpyCH4III	ACNGT	1 cut(s)	137
HpyCH4IV	ACGT	1 cut(s)	235
HpyCH4V	TGCA	3 cut(s)	35, 43, 232
HpyF10VI	GCNNNNNNNGC	1 cut(s)	86
HpyF3I	CTNAG	3 cut(s)	6, 266, 390
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	3 cut(s)	123, 127, 193
Lsp1109I	GCAGC	3 cut(s)	31, 76, 184
LweI	GCATC	2 cut(s)	22, 30
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
MfeI	CAATTG	1 cut(s)	371
MflI	RGATCY	1 cut(s)	241
MhlI	GDGCHC	1 cut(s)	396
MluCI	AATT	1 cut(s)	371
MnlI	CCTC	3 cut(s)	79, 232, 286
MseI	TTAA	1 cut(s)	338
MslI	CAYNNNNRTG	1 cut(s)	27
MunI	CAATTG	1 cut(s)	371
Mva1269I	GAATGC	1 cut(s)	259
MwoI	GCNNNNNNNGC	1 cut(s)	86
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
PaeR7I	CTCGAG	1 cut(s)	395
PctI	GAATGC	1 cut(s)	259
PkrI	GCNGC	3 cut(s)	21, 91, 199
Psp124BI	GAGCTC	1 cut(s)	396
PsuI	RGATCY	1 cut(s)	241
RseI	CAYNNNNRTG	1 cut(s)	27
SacI	GAGCTC	1 cut(s)	396
SaqAI	TTAA	1 cut(s)	338
SatI	GCNGC	3 cut(s)	20, 90, 198
Sau3AI	GATC	1 cut(s)	241
SduI	GDGCHC	1 cut(s)	396
SetI	ASST	9 cut(s)	123, 199, 210, 216, 238, 306, 338, 363, 396
SfaNI	GCATC	2 cut(s)	22, 30
Sfr274I	CTCGAG	1 cut(s)	395
SlaI	CTCGAG	1 cut(s)	395
SmiMI	CAYNNNNRTG	1 cut(s)	27
SmlI	CTYRAG	1 cut(s)	395
SmoI	CTYRAG	1 cut(s)	395
Sse9I	AATT	1 cut(s)	371
SsiI	CCGC	1 cut(s)	143
SstI	GAGCTC	1 cut(s)	396
StyI	CCWWGG	1 cut(s)	343
TaaI	ACNGT	1 cut(s)	137
TaiI	ACGT	1 cut(s)	238
TaqI	TCGA	1 cut(s)	396
TasI	AATT	1 cut(s)	371
Tru1I	TTAA	1 cut(s)	338
Tru9I	TTAA	1 cut(s)	338
TseI	GCWGC	3 cut(s)	19, 89, 197
TspDTI	ATGAA	1 cut(s)	345
XceI	RCATGY	2 cut(s)	72, 179
XcmI	CCANNNNNNNNNTGG	1 cut(s)	187
XhoI	CTCGAG	1 cut(s)	395

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