Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0001747

Physical Location & Seq

Genomic Coordinates Reverse (-)

8169970 .. 8171540

Gene Structure 1571 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG050300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 411 bp

ATGACTGAGAGAGAACAGCAGCAGCACCAGGGTGATGCACAGATGCAATCTCCAAAGGATGACATGGTGGCATGTGTGATGGCATTGGAGGCTGCTTTGCTTCCATGCTTGCCTGCCAGAGAGCTTCAAGCAATAGACCGTTCACCGCACCCGTCTCATCAGATTGATGTTGAGAGACATGCCAGAGATTTTATGGAAGCTGCCAAAAAGCTTCAGCTCTATTTTATTGGTCTGCAACGTGAGGATCTGCCCACGAATGCTGAAAAACTCAGAAAGGAGATTGCTGTGATGGAAGAGGAGTTGATGGTAAAGAATGAGATTATCAAGAAGAATGAAAGGTTAATCCAAGGGTGGAAAAAGGAGCTGAAAGACCAACTGGACAGACACAATACTGAGCTCGAGAAAGTGTAG

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

136

Amino Acids

15.9

Weight (kDa)

5.58

Isoelectric Point (pI)

56.88

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Med28	PF11594	25 - 122	1.9e-23	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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Publication-ready

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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)	146
AclWI	GGATC	1 cut(s)	252
AcuI	CTGAAG	1 cut(s)	197
AgsI	TTSAA	1 cut(s)	128
AjnI	CCWGG	1 cut(s)	27
AleI	CACNNNNGTG	1 cut(s)	30
AluBI	AGCT	6 cut(s)	124, 200, 211, 217, 364, 397
AluI	AGCT	6 cut(s)	124, 200, 211, 217, 364, 397
Alw21I	GWGCWC	1 cut(s)	399
Alw26I	GTCTC	2 cut(s)	159, 169
AlwI	GGATC	1 cut(s)	252
Ama87I	CYCGRG	1 cut(s)	398
ApeKI	GCWGC	4 cut(s)	19, 22, 92, 200
AsuHPI	GGTGA	2 cut(s)	44, 135
AvaI	CYCGRG	1 cut(s)	398
BanII	GRGCYC	1 cut(s)	399
Bbv12I	GWGCWC	1 cut(s)	399
BbvI	GCAGC	4 cut(s)	31, 34, 79, 187
BccI	CCATC	3 cut(s)	73, 283, 298
BciT130I	CCWGG	1 cut(s)	29
BcoDI	GTCTC	2 cut(s)	159, 169
BisI	GCNGC	4 cut(s)	20, 23, 93, 201
BlsI	GCNGC	4 cut(s)	21, 24, 94, 202
Bme1390I	CCNGG	1 cut(s)	29
BmeT110I	CYCGRG	1 cut(s)	398
BmrFI	CCNGG	1 cut(s)	29
BmsI	GCATC	2 cut(s)	25, 33
BsaJI	CCNNGG	2 cut(s)	28, 346
Bse1I	ACTGG	1 cut(s)	381
BseBI	CCWGG	1 cut(s)	29
BseDI	CCNNGG	2 cut(s)	28, 346
BseGI	GGATG	1 cut(s)	64
BseMII	CTCAG	2 cut(s)	283, 384
BseNI	ACTGG	1 cut(s)	381
BseRI	GAGGAG	1 cut(s)	311
BseXI	GCAGC	4 cut(s)	31, 34, 79, 187
BsiHKAI	GWGCWC	1 cut(s)	399
BsiHKCI	CYCGRG	1 cut(s)	398
BsmAI	GTCTC	2 cut(s)	159, 169
BsmBI	CGTCTC	1 cut(s)	159
BsmI	GAATGC	1 cut(s)	262
BsoBI	CYCGRG	1 cut(s)	398
Bsp1286I	GDGCHC	1 cut(s)	399
Bsp143I	GATC	1 cut(s)	244
BspACI	CCGC	1 cut(s)	146
BspCNI	CTCAG	2 cut(s)	282, 385
BspPI	GGATC	1 cut(s)	252
BsrI	ACTGG	1 cut(s)	381
BssECI	CCNNGG	2 cut(s)	28, 346
BssMI	GATC	1 cut(s)	244
BssT1I	CCWWGG	1 cut(s)	346
Bst2UI	CCWGG	1 cut(s)	29
Bst4CI	ACNGT	1 cut(s)	140
Bst6I	CTCTTC	1 cut(s)	288
BstC8I	GCNNGC	2 cut(s)	110, 114
BstDEI	CTNAG	3 cut(s)	6, 269, 393
BstF5I	GGATG	1 cut(s)	64
BstKTI	GATC	1 cut(s)	247
BstMAI	GTCTC	2 cut(s)	159, 169
BstMBI	GATC	1 cut(s)	244
BstMWI	GCNNNNNNNGC	1 cut(s)	89
BstNI	CCWGG	1 cut(s)	29
BstNSI	RCATGY	2 cut(s)	75, 182
BstSCI	CCNGG	1 cut(s)	27
BstV1I	GCAGC	4 cut(s)	31, 34, 79, 187
BstX2I	RGATCY	1 cut(s)	244
BstYI	RGATCY	1 cut(s)	244
BtsCI	GGATG	1 cut(s)	64
Cac8I	GCNNGC	2 cut(s)	110, 114
CviAII	CATG	4 cut(s)	64, 72, 105, 179
CviJI	RGCY	7 cut(s)	92, 124, 200, 211, 217, 364, 397
CviKI_1	RGCY	7 cut(s)	92, 124, 200, 211, 217, 364, 397
DdeI	CTNAG	3 cut(s)	6, 269, 393
DpnI	GATC	1 cut(s)	246
DpnII	GATC	1 cut(s)	244
Eam1104I	CTCTTC	1 cut(s)	288
EarI	CTCTTC	1 cut(s)	288
Ecl136II	GAGCTC	1 cut(s)	397
Eco130I	CCWWGG	1 cut(s)	346
Eco24I	GRGCYC	1 cut(s)	399
Eco53kI	GAGCTC	1 cut(s)	397
Eco57I	CTGAAG	1 cut(s)	197
Eco88I	CYCGRG	1 cut(s)	398
EcoICRI	GAGCTC	1 cut(s)	397
EcoRII	CCWGG	1 cut(s)	27
EcoT14I	CCWWGG	1 cut(s)	346
EcoT38I	GRGCYC	1 cut(s)	399
ErhI	CCWWGG	1 cut(s)	346
Esp3I	CGTCTC	1 cut(s)	159
FaeI	CATG	4 cut(s)	67, 75, 108, 182
FaiI	YATR	5 cut(s)	65, 73, 106, 180, 194
FatI	CATG	4 cut(s)	63, 71, 104, 178
Fnu4HI	GCNGC	4 cut(s)	20, 23, 93, 201
FokI	GGATG	1 cut(s)	71
FriOI	GRGCYC	1 cut(s)	399
Fsp4HI	GCNGC	4 cut(s)	20, 23, 93, 201
GluI	GCNGC	4 cut(s)	20, 23, 93, 201
Hin1II	CATG	4 cut(s)	67, 75, 108, 182
HindIII	AAGCTT	1 cut(s)	209
HphI	GGTGA	2 cut(s)	44, 135
Hpy166II	GTNNAC	1 cut(s)	143
Hpy188I	TCNGA	2 cut(s)	162, 272
Hpy188III	TCNNGA	2 cut(s)	325, 400
Hpy8I	GTNNAC	1 cut(s)	143
HpyCH4III	ACNGT	1 cut(s)	140
HpyCH4IV	ACGT	1 cut(s)	238
HpyCH4V	TGCA	3 cut(s)	38, 46, 235
HpyF10VI	GCNNNNNNNGC	1 cut(s)	89
HpyF3I	CTNAG	3 cut(s)	6, 269, 393
HpySE526I	ACGT	1 cut(s)	238
Hsp92II	CATG	4 cut(s)	67, 75, 108, 182
Kzo9I	GATC	1 cut(s)	244
LmnI	GCTCC	1 cut(s)	361
LpnPI	CCDG	6 cut(s)	14, 41, 126, 130, 196, 362
Lsp1109I	GCAGC	4 cut(s)	31, 34, 79, 187
LweI	GCATC	2 cut(s)	25, 33
MaeII	ACGT	1 cut(s)	238
MalI	GATC	1 cut(s)	246
MboI	GATC	1 cut(s)	244
MboII	GAAGA	2 cut(s)	305, 340
MflI	RGATCY	1 cut(s)	244
MhlI	GDGCHC	1 cut(s)	399
MnlI	CCTC	3 cut(s)	82, 235, 289
MseI	TTAA	1 cut(s)	341
MslI	CAYNNNNRTG	1 cut(s)	30
MspR9I	CCNGG	1 cut(s)	29
Mva1269I	GAATGC	1 cut(s)	262
MvaI	CCWGG	1 cut(s)	29
MwoI	GCNNNNNNNGC	1 cut(s)	89
NdeII	GATC	1 cut(s)	244
NlaIII	CATG	4 cut(s)	67, 75, 108, 182
NspI	RCATGY	2 cut(s)	75, 182
OliI	CACNNNNGTG	1 cut(s)	30
PaeR7I	CTCGAG	1 cut(s)	398
PctI	GAATGC	1 cut(s)	262
PkrI	GCNGC	4 cut(s)	21, 24, 94, 202
Psp124BI	GAGCTC	1 cut(s)	399
Psp6I	CCWGG	1 cut(s)	27
PspGI	CCWGG	1 cut(s)	27
PsuI	RGATCY	1 cut(s)	244
RseI	CAYNNNNRTG	1 cut(s)	30
SacI	GAGCTC	1 cut(s)	399
SaqAI	TTAA	1 cut(s)	341
SatI	GCNGC	4 cut(s)	20, 23, 93, 201
Sau3AI	GATC	1 cut(s)	244
ScrFI	CCNGG	1 cut(s)	29
SduI	GDGCHC	1 cut(s)	399
SetI	ASST	8 cut(s)	126, 202, 213, 219, 241, 341, 366, 399
SfaNI	GCATC	2 cut(s)	25, 33
Sfr274I	CTCGAG	1 cut(s)	398
SlaI	CTCGAG	1 cut(s)	398
SmiMI	CAYNNNNRTG	1 cut(s)	30
SmlI	CTYRAG	1 cut(s)	398
SmoI	CTYRAG	1 cut(s)	398
SsiI	CCGC	1 cut(s)	146
SstI	GAGCTC	1 cut(s)	399
StyD4I	CCNGG	1 cut(s)	27
StyI	CCWWGG	1 cut(s)	346
TaaI	ACNGT	1 cut(s)	140
TaiI	ACGT	1 cut(s)	241
TaqI	TCGA	1 cut(s)	399
Tru1I	TTAA	1 cut(s)	341
Tru9I	TTAA	1 cut(s)	341
TseI	GCWGC	4 cut(s)	19, 22, 92, 200
TspDTI	ATGAA	1 cut(s)	348
XceI	RCATGY	2 cut(s)	75, 182
XcmI	CCANNNNNNNNNTGG	1 cut(s)	190
XhoI	CTCGAG	1 cut(s)	398

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