Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0001747

Physical Location & Seq

Genomic Coordinates Forward (+)

28354391 .. 28357296

Gene Structure 2906 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG143300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 273 bp

ATGGTGTTTTTTTTCACTTCTTCAGTTGATGTGGAGAGACATGCTAGAGATTTTATGGACGCTGCCAAAAAGCTTCAGCTGCATTTTCTTGGTCTGCAACGTGAGGACCAGCCAACAAATGCTGAACAACTTAGAAAGGAGATTGCTGTGATGGAAGAGGAGTTGAATATAAAGACTGAGATCATCAAGAAGCATGAAAGGCTAATCCAGGGGTGGAAAAAGGAGCTAAAAGACCAATTGAACAAGCACAACACCGAGCTTGAGAAGGTGTAG

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

90

Amino Acids

10.76

Weight (kDa)

6.42

Isoelectric Point (pI)

46.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Med28	PF11594	9 - 76	4.9e-18	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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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)
AcuI	CTGAAG	2 cut(s)	6, 59
AgsI	TTSAA	2 cut(s)	166, 241
AjnI	CCWGG	1 cut(s)	207
AluBI	AGCT	4 cut(s)	73, 79, 226, 259
AluI	AGCT	4 cut(s)	73, 79, 226, 259
Alw26I	GTCTC	1 cut(s)	31
ApeKI	GCWGC	2 cut(s)	62, 79
AspS9I	GGNCC	1 cut(s)	106
AvaII	GGWCC	1 cut(s)	106
BbvI	GCAGC	2 cut(s)	49, 66
BccI	CCATC	1 cut(s)	145
BciT130I	CCWGG	1 cut(s)	209
BcoDI	GTCTC	1 cut(s)	31
BfaI	CTAG	1 cut(s)	45
BisI	GCNGC	2 cut(s)	63, 80
BlsI	GCNGC	2 cut(s)	64, 81
Bme1390I	CCNGG	1 cut(s)	209
Bme18I	GGWCC	1 cut(s)	106
BmgT120I	GGNCC	1 cut(s)	106
BmrFI	CCNGG	1 cut(s)	209
BsaJI	CCNNGG	1 cut(s)	208
BseBI	CCWGG	1 cut(s)	209
BseDI	CCNNGG	1 cut(s)	208
BseMII	CTCAG	1 cut(s)	168
BseRI	GAGGAG	1 cut(s)	173
BseXI	GCAGC	2 cut(s)	49, 66
BsmAI	GTCTC	1 cut(s)	31
Bsp143I	GATC	1 cut(s)	180
BspCNI	CTCAG	1 cut(s)	169
BssECI	CCNNGG	1 cut(s)	208
BssMI	GATC	1 cut(s)	180
Bst2UI	CCWGG	1 cut(s)	209
Bst6I	CTCTTC	1 cut(s)	150
BstDEI	CTNAG	2 cut(s)	131, 177
BstKTI	GATC	1 cut(s)	183
BstMAI	GTCTC	1 cut(s)	31
BstMBI	GATC	1 cut(s)	180
BstMWI	GCNNNNNNNGC	2 cut(s)	79, 199
BstNI	CCWGG	1 cut(s)	209
BstNSI	RCATGY	1 cut(s)	44
BstSCI	CCNGG	1 cut(s)	207
BstV1I	GCAGC	2 cut(s)	49, 66
Cfr13I	GGNCC	1 cut(s)	106
CseI	GACGC	1 cut(s)	68
CviAII	CATG	2 cut(s)	41, 194
CviJI	RGCY	6 cut(s)	73, 79, 112, 202, 226, 259
CviKI_1	RGCY	6 cut(s)	73, 79, 112, 202, 226, 259
DdeI	CTNAG	2 cut(s)	131, 177
DpnI	GATC	1 cut(s)	182
DpnII	GATC	1 cut(s)	180
Eam1104I	CTCTTC	1 cut(s)	150
EarI	CTCTTC	1 cut(s)	150
Eco47I	GGWCC	1 cut(s)	106
Eco57I	CTGAAG	2 cut(s)	6, 59
EcoRII	CCWGG	1 cut(s)	207
FaeI	CATG	2 cut(s)	44, 197
FaiI	YATR	4 cut(s)	42, 56, 170, 195
FatI	CATG	2 cut(s)	40, 193
Fnu4HI	GCNGC	2 cut(s)	63, 80
Fsp4HI	GCNGC	2 cut(s)	63, 80
FspBI	CTAG	1 cut(s)	45
GluI	GCNGC	2 cut(s)	63, 80
HgaI	GACGC	1 cut(s)	68
Hin1II	CATG	2 cut(s)	44, 197
HindIII	AAGCTT	1 cut(s)	71
Hpy188III	TCNNGA	1 cut(s)	187
HpyAV	CCTTC	1 cut(s)	259
HpyCH4IV	ACGT	1 cut(s)	100
HpyCH4V	TGCA	2 cut(s)	82, 97
HpyF10VI	GCNNNNNNNGC	2 cut(s)	79, 199
HpyF3I	CTNAG	2 cut(s)	131, 177
HpySE526I	ACGT	1 cut(s)	100
Hsp92II	CATG	2 cut(s)	44, 197
Kzo9I	GATC	1 cut(s)	180
LmnI	GCTCC	1 cut(s)	223
LpnPI	CCDG	3 cut(s)	122, 194, 221
Lsp1109I	GCAGC	2 cut(s)	49, 66
MaeI	CTAG	1 cut(s)	45
MaeII	ACGT	1 cut(s)	100
MalI	GATC	1 cut(s)	182
MboI	GATC	1 cut(s)	180
MboII	GAAGA	2 cut(s)	12, 167
MfeI	CAATTG	1 cut(s)	236
MluCI	AATT	1 cut(s)	236
MnlI	CCTC	2 cut(s)	97, 151
MspA1I	CMGCKG	1 cut(s)	79
MspR9I	CCNGG	1 cut(s)	209
MunI	CAATTG	1 cut(s)	236
MvaI	CCWGG	1 cut(s)	209
MwoI	GCNNNNNNNGC	2 cut(s)	79, 199
NdeII	GATC	1 cut(s)	180
NlaIII	CATG	2 cut(s)	44, 197
NspI	RCATGY	1 cut(s)	44
PkrI	GCNGC	2 cut(s)	64, 81
Psp6I	CCWGG	1 cut(s)	207
PspGI	CCWGG	1 cut(s)	207
PspPI	GGNCC	1 cut(s)	106
PvuII	CAGCTG	1 cut(s)	79
SatI	GCNGC	2 cut(s)	63, 80
Sau3AI	GATC	1 cut(s)	180
Sau96I	GGNCC	1 cut(s)	106
ScrFI	CCNGG	1 cut(s)	209
SetI	ASST	6 cut(s)	75, 81, 103, 228, 261, 270
SinI	GGWCC	1 cut(s)	106
SmlI	CTYRAG	1 cut(s)	260
SmoI	CTYRAG	1 cut(s)	260
Sse9I	AATT	1 cut(s)	236
SspMI	CTAG	1 cut(s)	45
StyD4I	CCNGG	1 cut(s)	207
TaiI	ACGT	1 cut(s)	103
TasI	AATT	1 cut(s)	236
TseI	GCWGC	2 cut(s)	62, 79
TspDTI	ATGAA	1 cut(s)	210
VpaK11BI	GGWCC	1 cut(s)	106
XceI	RCATGY	1 cut(s)	44
XspI	CTAG	1 cut(s)	45

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