Rmu_ssc0000289.1_g000020

mediator of RNA polymerase II transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_ssc0000289.1
OG0017665
Physical Location & Seq
Reverse (-)
102014 .. 104676
2663 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 732 bp
atggcggcagaaaagcggcttatggtggtcgtcgacggaacaacagctatggggccttactggaaatccattctctcagattacctcgaaaagatcatcaggaacataagtggccaaccgtcagctaaccaggatgcttcagctggtgcagcagtatacctgggcctggttcagtataattctcacggacttgataacactggttccttaacgcgaccaagtccttggactagaaatgtggatgggtttcttgaagggctctcggctttacatttttctggtggtggtggtcctaatgaagccgccattgctggggggctggcagaagcacttgtgatgtttccgaagcctactcccactggaactggaactgaaactgaaactgatcaagttcaagaccataatgccagagaaaggcattgtattcttgtggctgcaagcaaccctgtgttgtttcgaaccgccgttcagataccgataataagtaatggccaattttcttctggtacacaaactcgatggactcttgctgatgctcaagatgttgccaaattatatgctgagggaagaaattatcctgaatctgaaggaacagtatcttccttcaaaaatgttaagtacccacattttcctgtactaatatcaaacaagttctcagaggctcgtgctgccctcgataactctcatcctgtgatcaaaactgaatacaatgtctttctcagctcatcatga
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Med25_VWA

Protein Analysis

243

Amino Acids

26.09

Weight (kDa)

5.86

Isoelectric Point (pI)

32.73

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Med25_VWA PF11265 4 - 153 8.8e-24 Mediator complex subunit 25 von Willebrand factor type A
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0017665)

Species Orthologous Gene IDs
fragaria_vesca FvH4_5g12601 FvH4_5g12610
rosa_chinensis RchiOBHm_Chr7g0184721
rosa_laevigata RLG00000004956
rosa_multiflora Rmu_ssc0000289.1_g000020
rosa_roxburghii Rroxscaffold_3G00269400
rosa_rugosa Rorug06G0464700
rosa_samantha Rh7AG078200 Rh7BG069100 Rh7CG069900 Rh7DG069300
rosa_wichuraiana Rw7G005720

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 2 cut(s) 33, 156
AccII CGCG 1 cut(s) 214
AciI CCGC 4 cut(s) 5, 16, 303, 462
AcoI YGGCCR 2 cut(s) 112, 490
AcuI CTGAAG 2 cut(s) 123, 606
AfaI GTAC 3 cut(s) 508, 620, 636
AfiI CCNNNNNNNGG 3 cut(s) 166, 312, 414
AgsI TTSAA 3 cut(s) 254, 395, 607
AjnI CCWGG 3 cut(s) 129, 159, 165
AluBI AGCT 4 cut(s) 47, 125, 143, 723
AluI AGCT 4 cut(s) 47, 125, 143, 723
AoxI GGCC 4 cut(s) 53, 112, 163, 490
ApeKI GCWGC 3 cut(s) 149, 434, 668
AspS9I GGNCC 3 cut(s) 53, 163, 290
AsuII TTCGAA 1 cut(s) 457
AvaII GGWCC 1 cut(s) 290
BalI TGGCCA 2 cut(s) 114, 492
BanII GRGCYC 1 cut(s) 261
BauI CACGAG 1 cut(s) 663
BbvCI CCTCAGC 1 cut(s) 561
BbvI GCAGC 3 cut(s) 161, 421, 655
BccI CCATC 2 cut(s) 236, 513
BceAI ACGGC 1 cut(s) 449
BciT130I CCWGG 3 cut(s) 131, 161, 167
BclI TGATCA 2 cut(s) 385, 693
BfaI CTAG 1 cut(s) 231
BisI GCNGC 6 cut(s) 6, 17, 150, 303, 435, 669
BlsI GCNGC 6 cut(s) 7, 18, 151, 304, 436, 670
Bme1390I CCNGG 3 cut(s) 131, 161, 167
Bme18I GGWCC 1 cut(s) 290
BmgT120I GGNCC 3 cut(s) 53, 163, 290
BmiI GGNNCC 2 cut(s) 54, 205
BmrFI CCNGG 3 cut(s) 131, 161, 167
BmsI GCATC 2 cut(s) 124, 523
Bpu10I CCTNAGC 1 cut(s) 561
Bpu14I TTCGAA 1 cut(s) 457
BpuEI CTTGAG 1 cut(s) 522
BsaJI CCNNGG 2 cut(s) 160, 224
Bsc4I CCNNNNNNNGG 3 cut(s) 166, 312, 414
Bse1I ACTGG 4 cut(s) 65, 205, 364, 370
Bse3DI GCAATG 1 cut(s) 306
BseBI CCWGG 3 cut(s) 131, 161, 167
BseDI CCNNGG 2 cut(s) 160, 224
BseGI GGATG 3 cut(s) 139, 247, 685
BseLI CCNNNNNNNGG 3 cut(s) 166, 312, 414
BseMI GCAATG 1 cut(s) 306
BseMII CTCAG 3 cut(s) 90, 552, 669
BseNI ACTGG 4 cut(s) 65, 205, 364, 370
BseXI GCAGC 3 cut(s) 161, 421, 655
BseYI CCCAGC 1 cut(s) 311
BsgI GTGCAG 1 cut(s) 168
Bsh1236I CGCG 1 cut(s) 214
BshFI GGCC 4 cut(s) 55, 114, 165, 492
BslI CCNNNNNNNGG 3 cut(s) 166, 312, 414
BsnI GGCC 4 cut(s) 55, 114, 165, 492
Bsp119I TTCGAA 1 cut(s) 457
Bsp1286I GDGCHC 1 cut(s) 261
Bsp143I GATC 3 cut(s) 93, 385, 693
BspACI CCGC 4 cut(s) 5, 16, 303, 462
BspANI GGCC 4 cut(s) 55, 114, 165, 492
BspCNI CTCAG 4 cut(s) 89, 553, 668, 732
BspFNI CGCG 1 cut(s) 214
BspHI TCATGA 1 cut(s) 728
BspLI GGNNCC 2 cut(s) 54, 205
BspT104I TTCGAA 1 cut(s) 457
BsrDI GCAATG 1 cut(s) 306
BsrI ACTGG 4 cut(s) 65, 205, 364, 370
BssECI CCNNGG 2 cut(s) 160, 224
BssMI GATC 3 cut(s) 93, 385, 693
BssNAI GTATAC 1 cut(s) 157
BssSI CACGAG 1 cut(s) 663
BssT1I CCWWGG 1 cut(s) 224
Bst1107I GTATAC 1 cut(s) 157
Bst2BI CACGAG 1 cut(s) 663
Bst2UI CCWGG 3 cut(s) 131, 161, 167
Bst4CI ACNGT 2 cut(s) 120, 595
BstBI TTCGAA 1 cut(s) 457
BstC8I GCNNGC 2 cut(s) 321, 439
BstDEI CTNAG 4 cut(s) 76, 561, 655, 719
BstF5I GGATG 3 cut(s) 139, 247, 685
BstFNI CGCG 1 cut(s) 214
BstKTI GATC 3 cut(s) 96, 388, 696
BstMBI GATC 3 cut(s) 93, 385, 693
BstMWI GCNNNNNNNGC 3 cut(s) 149, 308, 668
BstNI CCWGG 3 cut(s) 131, 161, 167
BstSCI CCNGG 3 cut(s) 129, 159, 165
BstUI CGCG 1 cut(s) 214
BstV1I GCAGC 3 cut(s) 161, 421, 655
BstXI CCANNNNNNTGG 1 cut(s) 225
BstZ17I GTATAC 1 cut(s) 157
BsuRI GGCC 4 cut(s) 55, 114, 165, 492
BtsCI GGATG 3 cut(s) 139, 247, 685
BtsIMutI CAGTG 2 cut(s) 198, 357
Cac8I GCNNGC 2 cut(s) 321, 439
CciI TCATGA 1 cut(s) 728
Cfr13I GGNCC 3 cut(s) 53, 163, 290
Csp6I GTAC 3 cut(s) 507, 619, 635
CviAII CATG 1 cut(s) 729
CviQI GTAC 3 cut(s) 507, 619, 635
DdeI CTNAG 4 cut(s) 76, 561, 655, 719
DpnI GATC 3 cut(s) 95, 387, 695
DpnII GATC 3 cut(s) 93, 385, 693
EaeI YGGCCR 2 cut(s) 112, 490
Eco130I CCWWGG 1 cut(s) 224
Eco24I GRGCYC 1 cut(s) 261
Eco47I GGWCC 1 cut(s) 290
Eco57I CTGAAG 2 cut(s) 123, 606
EcoO109I RGGNCCY 1 cut(s) 53
EcoRII CCWGG 3 cut(s) 129, 159, 165
EcoT14I CCWWGG 1 cut(s) 224
EcoT38I GRGCYC 1 cut(s) 261
ErhI CCWWGG 1 cut(s) 224
FaeI CATG 1 cut(s) 732
FaiI YATR 9 cut(s) 23, 50, 107, 157, 177, 402, 556, 558, 730
FatI CATG 1 cut(s) 728
FbaI TGATCA 2 cut(s) 385, 693
FblI GTMKAC 2 cut(s) 33, 156
Fnu4HI GCNGC 6 cut(s) 6, 17, 150, 303, 435, 669
FokI GGATG 3 cut(s) 146, 254, 672
FriOI GRGCYC 1 cut(s) 261
Fsp4HI GCNGC 6 cut(s) 6, 17, 150, 303, 435, 669
FspBI CTAG 1 cut(s) 231
GluI GCNGC 6 cut(s) 6, 17, 150, 303, 435, 669
GsaI CCCAGC 1 cut(s) 315
HaeIII GGCC 4 cut(s) 55, 114, 165, 492
Hin1II CATG 1 cut(s) 732
HincII GTYRAC 1 cut(s) 34
HindII GTYRAC 1 cut(s) 34
HinfI GANTC 2 cut(s) 523, 581
Hpy166II GTNNAC 3 cut(s) 34, 157, 509
Hpy188I TCNGA 5 cut(s) 79, 345, 471, 586, 658
Hpy188III TCNNGA 6 cut(s) 100, 251, 395, 539, 578, 729
Hpy8I GTNNAC 3 cut(s) 34, 157, 509
Hpy99I CGWCG 2 cut(s) 35, 38
HpyAV CCTTC 3 cut(s) 248, 581, 613
HpyCH4III ACNGT 2 cut(s) 120, 595
HpyCH4V TGCA 2 cut(s) 149, 437
HpyF10VI GCNNNNNNNGC 3 cut(s) 149, 308, 668
HpyF3I CTNAG 4 cut(s) 76, 561, 655, 719
Hsp92II CATG 1 cut(s) 732
Ksp22I TGATCA 2 cut(s) 385, 693
Kzo9I GATC 3 cut(s) 93, 385, 693
Lsp1109I GCAGC 3 cut(s) 161, 421, 655
LweI GCATC 2 cut(s) 124, 523
MaeI CTAG 1 cut(s) 231
MalI GATC 3 cut(s) 95, 387, 695
MboI GATC 3 cut(s) 93, 385, 693
MboII GAAGA 3 cut(s) 492, 579, 591
MhlI GDGCHC 1 cut(s) 261
MlsI TGGCCA 2 cut(s) 114, 492
MluCI AATT 4 cut(s) 178, 494, 551, 571
MluNI TGGCCA 2 cut(s) 114, 492
MlyI GAGTC 1 cut(s) 517
MnlI CCTC 4 cut(s) 95, 556, 652, 683
Mox20I TGGCCA 2 cut(s) 114, 492
MscI TGGCCA 2 cut(s) 114, 492
MseI TTAA 2 cut(s) 209, 615
Msp20I TGGCCA 2 cut(s) 114, 492
MspA1I CMGCKG 1 cut(s) 143
MspR9I CCNGG 3 cut(s) 131, 161, 167
MvaI CCWGG 3 cut(s) 131, 161, 167
MvnI CGCG 1 cut(s) 214
MwoI GCNNNNNNNGC 3 cut(s) 149, 308, 668
NdeII GATC 3 cut(s) 93, 385, 693
NlaIII CATG 1 cut(s) 732
NlaIV GGNNCC 2 cut(s) 54, 205
NmeAIII GCCGAG 1 cut(s) 242
NspV TTCGAA 1 cut(s) 457
PagI TCATGA 1 cut(s) 728
PfeI GAWTC 1 cut(s) 581
PflFI GACNNNGTC 1 cut(s) 219
PkrI GCNGC 6 cut(s) 7, 18, 151, 304, 436, 670
PleI GAGTC 1 cut(s) 517
PpsI GAGTC 1 cut(s) 517
Psp6I CCWGG 3 cut(s) 129, 159, 165
PspFI CCCAGC 1 cut(s) 311
PspGI CCWGG 3 cut(s) 129, 159, 165
PspN4I GGNNCC 2 cut(s) 54, 205
PspPI GGNCC 3 cut(s) 53, 163, 290
PsyI GACNNNGTC 1 cut(s) 219
PvuII CAGCTG 1 cut(s) 143
RsaI GTAC 3 cut(s) 508, 620, 636
RsaNI GTAC 3 cut(s) 507, 619, 635
SalI GTCGAC 1 cut(s) 32
SaqAI TTAA 2 cut(s) 209, 615
SatI GCNGC 6 cut(s) 6, 17, 150, 303, 435, 669
Sau3AI GATC 3 cut(s) 93, 385, 693
Sau96I GGNCC 3 cut(s) 53, 163, 290
SchI GAGTC 1 cut(s) 517
ScrFI CCNGG 3 cut(s) 131, 161, 167
SduI GDGCHC 1 cut(s) 261
SetI ASST 6 cut(s) 49, 87, 127, 145, 162, 725
SfaNI GCATC 2 cut(s) 124, 523
SfuI TTCGAA 1 cut(s) 457
SgrDI CGTCGACG 1 cut(s) 32
SinI GGWCC 1 cut(s) 290
SmlI CTYRAG 1 cut(s) 537
SmoI CTYRAG 1 cut(s) 537
Sse9I AATT 4 cut(s) 178, 494, 551, 571
SsiI CCGC 4 cut(s) 5, 16, 303, 462
SspMI CTAG 1 cut(s) 231
StyD4I CCNGG 3 cut(s) 129, 159, 165
StyI CCWWGG 1 cut(s) 224
TaaI ACNGT 2 cut(s) 120, 595
TaqI TCGA 5 cut(s) 33, 87, 457, 517, 675
TasI AATT 4 cut(s) 178, 494, 551, 571
TatI WGTACW 1 cut(s) 634
TauI GCSGC 3 cut(s) 8, 19, 305
TfiI GAWTC 1 cut(s) 581
Tru1I TTAA 2 cut(s) 209, 615
Tru9I TTAA 2 cut(s) 209, 615
TscAI CASTG 2 cut(s) 205, 364
TseI GCWGC 3 cut(s) 149, 434, 668
TspDTI ATGAA 1 cut(s) 312
TspGWI ACGGA 2 cut(s) 51, 201
TspRI CASTG 2 cut(s) 205, 364
Tth111I GACNNNGTC 1 cut(s) 219
VpaK11BI GGWCC 1 cut(s) 290
XcmI CCANNNNNNNNNTGG 1 cut(s) 500
XmiI GTMKAC 2 cut(s) 33, 156
XspI CTAG 1 cut(s) 231
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.