Rh6BG097900

mediator of RNA polymerase II transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6B
OG0019442
Physical Location & Seq
Forward (+)
15325802 .. 15327311
1510 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6BG097900.1

Sequence Viewer

Length: 246 bp
ATGGATTCTCAGACCCAGAACACGTCGTTGCAGAGGCTTCAAAATGTGGAGAAGAGAATCGTGAAGGTTTTGGAGCTGGCGGGAAGTGTGATGGACGAGCTTGCAAACCCTACGGGTCCCAGGAGGGAGGCTATCAACAACCATGTCCGCGAGTTCATGCAATTGATCAAGGTACCTCTTCCATACACTACATCTGAAATTAAACCAGTTCTGGAATTTGAGTGGAACCCCAGAATTGAATTGTGA

Protein Analysis

81

Amino Acids

9.4

Weight (kDa)

5.78

Isoelectric Point (pI)

36.65

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Med11 PF10280 8 - 57 8.1e-10 Mediator complex protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0019442)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr7g0240721
rosa_rugosa Rorug07G0338400 Rorug07G0338400
rosa_samantha Rh6BG097900 Rh6CG093900 Rh6DG087900 Rh7AG493200
rosa_wichuraiana Rw6G009050

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 172
AccB1I GGYRCC 1 cut(s) 172
AccII CGCG 1 cut(s) 150
AciI CCGC 2 cut(s) 80, 148
AcsI RAATTY 1 cut(s) 215
AfaI GTAC 1 cut(s) 174
AflIII ACRYGT 1 cut(s) 21
AgsI TTSAA 2 cut(s) 41, 239
AjiI CACGTC 1 cut(s) 24
AjnI CCWGG 1 cut(s) 119
AluBI AGCT 2 cut(s) 76, 100
AluI AGCT 2 cut(s) 76, 100
ApoI RAATTY 1 cut(s) 215
Asp718I GGTACC 1 cut(s) 172
AspS9I GGNCC 1 cut(s) 116
AvaII GGWCC 1 cut(s) 116
BanI GGYRCC 1 cut(s) 172
BccI CCATC 1 cut(s) 85
BciT130I CCWGG 1 cut(s) 121
BclI TGATCA 1 cut(s) 165
Bme1390I CCNGG 1 cut(s) 121
Bme18I GGWCC 1 cut(s) 116
BmgBI CACGTC 1 cut(s) 24
BmgT120I GGNCC 1 cut(s) 116
BmiI GGNNCC 4 cut(s) 117, 118, 174, 227
BmrFI CCNGG 1 cut(s) 121
BsaJI CCNNGG 1 cut(s) 119
Bse1I ACTGG 1 cut(s) 206
BseBI CCWGG 1 cut(s) 121
BseDI CCNNGG 1 cut(s) 119
BseMII CTCAG 1 cut(s) 23
BseNI ACTGG 1 cut(s) 206
Bsh1236I CGCG 1 cut(s) 150
BshNI GGYRCC 1 cut(s) 172
BslFI GGGAC 1 cut(s) 102
BsmFI GGGAC 1 cut(s) 102
Bsp143I GATC 1 cut(s) 165
BspACI CCGC 2 cut(s) 80, 148
BspCNI CTCAG 1 cut(s) 22
BspFNI CGCG 1 cut(s) 150
BspLI GGNNCC 4 cut(s) 117, 118, 174, 227
BspT107I GGYRCC 1 cut(s) 172
BsrI ACTGG 1 cut(s) 206
BssECI CCNNGG 1 cut(s) 119
BssMI GATC 1 cut(s) 165
Bst2UI CCWGG 1 cut(s) 121
Bst6I CTCTTC 2 cut(s) 47, 183
BstC8I GCNNGC 2 cut(s) 78, 102
BstDEI CTNAG 1 cut(s) 9
BstFNI CGCG 1 cut(s) 150
BstKTI GATC 1 cut(s) 168
BstMBI GATC 1 cut(s) 165
BstNI CCWGG 1 cut(s) 121
BstSCI CCNGG 1 cut(s) 119
BstUI CGCG 1 cut(s) 150
BtrI CACGTC 1 cut(s) 24
Cac8I GCNNGC 2 cut(s) 78, 102
Cfr13I GGNCC 1 cut(s) 116
Csp6I GTAC 1 cut(s) 173
CviAII CATG 2 cut(s) 143, 157
CviJI RGCY 4 cut(s) 37, 76, 100, 131
CviKI_1 RGCY 4 cut(s) 37, 76, 100, 131
CviQI GTAC 1 cut(s) 173
DdeI CTNAG 1 cut(s) 9
DpnI GATC 1 cut(s) 167
DpnII GATC 1 cut(s) 165
Eam1104I CTCTTC 2 cut(s) 47, 183
EarI CTCTTC 2 cut(s) 47, 183
Eco47I GGWCC 1 cut(s) 116
EcoO109I RGGNCCY 1 cut(s) 116
EcoRII CCWGG 1 cut(s) 119
FaeI CATG 2 cut(s) 146, 160
FaiI YATR 3 cut(s) 144, 158, 184
FaqI GGGAC 1 cut(s) 102
FatI CATG 2 cut(s) 142, 156
FauI CCCGC 1 cut(s) 73
FbaI TGATCA 1 cut(s) 165
Hin1II CATG 2 cut(s) 146, 160
HinfI GANTC 2 cut(s) 5, 57
Hpy188I TCNGA 2 cut(s) 12, 196
Hpy188III TCNNGA 2 cut(s) 61, 212
Hpy99I CGWCG 1 cut(s) 28
HpyAV CCTTC 1 cut(s) 58
HpyCH4IV ACGT 1 cut(s) 23
HpyCH4V TGCA 3 cut(s) 31, 104, 160
HpyF3I CTNAG 1 cut(s) 9
HpySE526I ACGT 1 cut(s) 23
Hsp92II CATG 2 cut(s) 146, 160
KflI GGGWCCC 1 cut(s) 116
KpnI GGTACC 1 cut(s) 176
Ksp22I TGATCA 1 cut(s) 165
Kzo9I GATC 1 cut(s) 165
LmnI GCTCC 1 cut(s) 73
LpnPI CCDG 6 cut(s) 29, 62, 106, 133, 197, 219
MaeII ACGT 1 cut(s) 23
MalI GATC 1 cut(s) 167
MboI GATC 1 cut(s) 165
MboII GAAGA 2 cut(s) 64, 170
MfeI CAATTG 1 cut(s) 161
MluCI AATT 5 cut(s) 161, 198, 215, 234, 239
MnlI CCTC 4 cut(s) 27, 117, 121, 186
MseI TTAA 1 cut(s) 201
MspR9I CCNGG 1 cut(s) 121
MunI CAATTG 1 cut(s) 161
MvaI CCWGG 1 cut(s) 121
MvnI CGCG 1 cut(s) 150
NdeII GATC 1 cut(s) 165
NlaIII CATG 2 cut(s) 146, 160
NlaIV GGNNCC 4 cut(s) 117, 118, 174, 227
PfeI GAWTC 2 cut(s) 5, 57
PpuMI RGGWCCY 1 cut(s) 116
Psp5II RGGWCCY 1 cut(s) 116
Psp6I CCWGG 1 cut(s) 119
PspGI CCWGG 1 cut(s) 119
PspN4I GGNNCC 4 cut(s) 117, 118, 174, 227
PspPI GGNCC 1 cut(s) 116
PspPPI RGGWCCY 1 cut(s) 116
RsaI GTAC 1 cut(s) 174
RsaNI GTAC 1 cut(s) 173
SaqAI TTAA 1 cut(s) 201
Sau3AI GATC 1 cut(s) 165
Sau96I GGNCC 1 cut(s) 116
ScrFI CCNGG 1 cut(s) 121
SetI ASST 6 cut(s) 26, 69, 78, 102, 174, 178
SinI GGWCC 1 cut(s) 116
Sse9I AATT 5 cut(s) 161, 198, 215, 234, 239
SsiI CCGC 2 cut(s) 80, 148
StyD4I CCNGG 1 cut(s) 119
TaiI ACGT 1 cut(s) 26
TasI AATT 5 cut(s) 161, 198, 215, 234, 239
TfiI GAWTC 2 cut(s) 5, 57
Tru1I TTAA 1 cut(s) 201
Tru9I TTAA 1 cut(s) 201
TspDTI ATGAA 1 cut(s) 145
VpaK11BI GGWCC 1 cut(s) 116
XapI RAATTY 1 cut(s) 215
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.