Rh1BG214800

mediator of RNA polymerase II transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1B
OG0018960
Physical Location & Seq
Reverse (-)
33511207 .. 33512646
1440 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1BG214800.1

Sequence Viewer

Length: 924 bp
ATGGCGAGGACCAAGTCTCGGCCACCGAATTACTGGAGGAATTACTTTGAAACTGCAAAAGATACGAATATTTTCAGTATAATTGATCATGCCATCAAGGTGGCCGCTTCTGATTTTCCAAAAGACTTCAGTTTACAAAAGGACAGAATAGTTGCACGATTGTCTTCTATTCAGTGTTTGGGCAATGATGAAGAATCAGTTCATGGTGGTTGCGAAAGTGGATCTGATAGCGATGGCTGTGAAGGACTACCTGAGGCTGATGTTAATAAAGAGAGCAACCTAAGTGATGAGGCCGATCGTGTTTCGATTGATGACGCTTCTCAAAATATTGATGCAGAGGTCTTGAGGATCAAGGAAATTTTTGAAAACAGTGATAAGGAAAAGGCTAATGACGCTTCGATGCTCGAGTCTCTGACGAGACTAAAGATGATGACTATGACTGTGGAGACTCTTGAGGCAACCGCAATTGGTAAAGTTGTTAGTGGTCTCAAAAAGCATGGATCCGAGCAGATTCGTGATCTTGCTCGAACACTTGTTGATGGGTGGAAAGTCGTGTCCTCTTCAGATGTTCTTAGCAAACAAAACAAGAATGAACAACTAGTGATCAAGAAACAAGAAGTTGTAGCTGTGAAGCCAAATAAGGCCTCAAACAACAATGAAGAAAAGATGCAGCGCTTGGATGATGAAGTTGCAGCGCAAGCGAAAATCGAAGCCACAAAAAGGAAACTCCATGAGCGTTATGAGCAAATTGAGAACACCAAGAAGCAAAGGATGGTTCAAGTCTTGGATGATCTCCCCAAGCAAGGGCCTAAAGTTGGCTCCCACACTACTAATCTACATGGAAAGAAACCTGGTTCAGCACATGGACGGATATCCGATAAGTTGCACAGATTAAAAAAGCAAGCTGGTGTGGTCGGCAAGTAA
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
Med26

Protein Analysis

307

Amino Acids

34.15

Weight (kDa)

7.7

Isoelectric Point (pI)

30.67

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Med26 PF08711 137 - 183 1e-13 TFIIS helical bundle-like domain
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: OG0018960)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr1g0352691
rosa_laevigata RLG00000028320
rosa_multiflora Rmu_sc0039102.1_g000001 Rmu_sc0039103.1_g000001
rosa_roxburghii Rroxscaffold_4G00302470
rosa_rugosa Rorug01G0231000
rosa_samantha Rh1AG244100 Rh1BG214800 Rh1CG228100

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 2 cut(s) 105, 462
AclWI GGATC 4 cut(s) 229, 356, 495, 508
AcoI YGGCCR 2 cut(s) 20, 102
AcsI RAATTY 1 cut(s) 357
AcuI CTGAAG 2 cut(s) 112, 546
AfeI AGCGCT 1 cut(s) 674
AfiI CCNNNNNNNGG 5 cut(s) 18, 720, 803, 804, 815
AgsI TTSAA 3 cut(s) 50, 365, 779
AhlI ACTAGT 1 cut(s) 598
AjnI CCWGG 1 cut(s) 850
AluBI AGCT 2 cut(s) 626, 905
AluI AGCT 2 cut(s) 626, 905
Alw26I GTCTC 5 cut(s) 21, 412, 414, 440, 491
AlwI GGATC 4 cut(s) 229, 356, 495, 508
Ama87I CYCGRG 1 cut(s) 404
Aor51HI AGCGCT 1 cut(s) 674
AoxI GGCC 5 cut(s) 20, 102, 291, 642, 806
ApeKI GCWGC 2 cut(s) 670, 692
ApoI RAATTY 1 cut(s) 357
Asp700I GAANNNNTTC 2 cut(s) 71, 198
AspLEI GCGC 2 cut(s) 675, 697
AspS9I GGNCC 2 cut(s) 9, 806
AvaI CYCGRG 1 cut(s) 404
AvaII GGWCC 1 cut(s) 9
AxyI CCTNAGG 1 cut(s) 252
BamHI GGATCC 1 cut(s) 500
BbsI GAAGAC 1 cut(s) 156
BbvI GCAGC 2 cut(s) 682, 704
BccI CCATC 4 cut(s) 101, 227, 533, 766
BciT130I CCWGG 1 cut(s) 852
BclI TGATCA 2 cut(s) 85, 603
BcoDI GTCTC 5 cut(s) 21, 412, 414, 440, 491
BcuI ACTAGT 1 cut(s) 598
BfaI CTAG 1 cut(s) 599
BfoI RGCGCY 1 cut(s) 676
BisI GCNGC 3 cut(s) 105, 671, 693
BlsI GCNGC 3 cut(s) 106, 672, 694
Bme1390I CCNGG 1 cut(s) 852
Bme18I GGWCC 1 cut(s) 9
BmeT110I CYCGRG 1 cut(s) 404
BmgT120I GGNCC 2 cut(s) 9, 806
BmiI GGNNCC 2 cut(s) 502, 820
BmrFI CCNGG 1 cut(s) 852
BmsI GCATC 3 cut(s) 322, 390, 657
BpiI GAAGAC 1 cut(s) 156
BpmI CTGGAG 1 cut(s) 55
BpuEI CTTGAG 2 cut(s) 364, 473
BsaI GGTCTC 1 cut(s) 491
Bsc4I CCNNNNNNNGG 5 cut(s) 18, 720, 803, 804, 815
Bse1I ACTGG 1 cut(s) 38
Bse21I CCTNAGG 1 cut(s) 252
Bse3DI GCAATG 1 cut(s) 190
BseBI CCWGG 1 cut(s) 852
BseGI GGATG 3 cut(s) 685, 777, 793
BseLI CCNNNNNNNGG 5 cut(s) 18, 720, 803, 804, 815
BseMI GCAATG 1 cut(s) 190
BseMII CTCAG 1 cut(s) 243
BseNI ACTGG 1 cut(s) 38
BseXI GCAGC 2 cut(s) 682, 704
Bsh1285I CGRYCG 1 cut(s) 298
BshFI GGCC 5 cut(s) 22, 104, 293, 644, 808
BsiEI CGRYCG 1 cut(s) 298
BsiHKCI CYCGRG 1 cut(s) 404
BslI CCNNNNNNNGG 5 cut(s) 18, 720, 803, 804, 815
BsmAI GTCTC 5 cut(s) 21, 412, 414, 440, 491
BsnI GGCC 5 cut(s) 22, 104, 293, 644, 808
Bso31I GGTCTC 1 cut(s) 491
BsoBI CYCGRG 1 cut(s) 404
Bsp143I GATC 8 cut(s) 85, 221, 295, 348, 500, 517, 603, 790
BspACI CCGC 2 cut(s) 105, 462
BspANI GGCC 5 cut(s) 22, 104, 293, 644, 808
BspCNI CTCAG 1 cut(s) 244
BspLI GGNNCC 2 cut(s) 502, 820
BspPI GGATC 4 cut(s) 229, 356, 495, 508
BspTNI GGTCTC 1 cut(s) 491
BsrDI GCAATG 1 cut(s) 190
BsrI ACTGG 1 cut(s) 38
BssMI GATC 8 cut(s) 85, 221, 295, 348, 500, 517, 603, 790
Bst2UI CCWGG 1 cut(s) 852
Bst4CI ACNGT 2 cut(s) 371, 442
Bst6I CTCTTC 1 cut(s) 565
BstC8I GCNNGC 2 cut(s) 699, 903
BstDEI CTNAG 3 cut(s) 252, 281, 572
BstF5I GGATG 3 cut(s) 685, 777, 793
BstH2I RGCGCY 1 cut(s) 676
BstHHI GCGC 2 cut(s) 675, 697
BstKTI GATC 8 cut(s) 88, 224, 298, 351, 503, 520, 606, 793
BstMAI GTCTC 5 cut(s) 21, 412, 414, 440, 491
BstMBI GATC 8 cut(s) 85, 221, 295, 348, 500, 517, 603, 790
BstMCI CGRYCG 1 cut(s) 298
BstMWI GCNNNNNNNGC 3 cut(s) 392, 698, 742
BstNI CCWGG 1 cut(s) 852
BstSCI CCNGG 1 cut(s) 850
BstV1I GCAGC 2 cut(s) 682, 704
BstV2I GAAGAC 1 cut(s) 156
BstX2I RGATCY 2 cut(s) 221, 500
BstXI CCANNNNNNTGG 1 cut(s) 100
BstYI RGATCY 2 cut(s) 221, 500
Bsu36I CCTNAGG 1 cut(s) 252
BsuRI GGCC 5 cut(s) 22, 104, 293, 644, 808
BtgZI GCGATG 1 cut(s) 246
BtsCI GGATG 3 cut(s) 685, 777, 793
BtsIMutI CAGTG 2 cut(s) 179, 376
Cac8I GCNNGC 2 cut(s) 699, 903
CfoI GCGC 2 cut(s) 675, 697
Cfr13I GGNCC 2 cut(s) 9, 806
CseI GACGC 2 cut(s) 323, 401
CsiI ACCWGGT 1 cut(s) 850
CviAII CATG 6 cut(s) 89, 203, 497, 731, 839, 863
DdeI CTNAG 3 cut(s) 252, 281, 572
DpnI GATC 8 cut(s) 87, 223, 297, 350, 502, 519, 605, 792
DpnII GATC 8 cut(s) 85, 221, 295, 348, 500, 517, 603, 790
EaeI YGGCCR 2 cut(s) 20, 102
Eam1104I CTCTTC 1 cut(s) 565
EarI CTCTTC 1 cut(s) 565
Eco147I AGGCCT 1 cut(s) 644
Eco31I GGTCTC 1 cut(s) 491
Eco32I GATATC 1 cut(s) 873
Eco47I GGWCC 1 cut(s) 9
Eco47III AGCGCT 1 cut(s) 674
Eco57I CTGAAG 2 cut(s) 112, 546
Eco81I CCTNAGG 1 cut(s) 252
Eco88I CYCGRG 1 cut(s) 404
EcoO109I RGGNCCY 1 cut(s) 806
EcoRII CCWGG 1 cut(s) 850
EcoRV GATATC 1 cut(s) 873
FaeI CATG 6 cut(s) 92, 206, 500, 734, 842, 866
FaiI YATR 9 cut(s) 80, 90, 204, 437, 498, 732, 741, 840, 864
FatI CATG 6 cut(s) 88, 202, 496, 730, 838, 862
FbaI TGATCA 2 cut(s) 85, 603
Fnu4HI GCNGC 3 cut(s) 105, 671, 693
FokI GGATG 3 cut(s) 692, 784, 800
Fsp4HI GCNGC 3 cut(s) 105, 671, 693
FspBI CTAG 1 cut(s) 599
GlaI GCGC 2 cut(s) 674, 696
GluI GCNGC 3 cut(s) 105, 671, 693
GsuI CTGGAG 1 cut(s) 55
HaeII RGCGCY 1 cut(s) 676
HaeIII GGCC 5 cut(s) 22, 104, 293, 644, 808
HgaI GACGC 2 cut(s) 323, 401
HhaI GCGC 2 cut(s) 675, 697
Hin1II CATG 6 cut(s) 92, 206, 500, 734, 842, 866
Hin6I GCGC 2 cut(s) 673, 695
HinP1I GCGC 2 cut(s) 673, 695
HinfI GANTC 4 cut(s) 194, 407, 448, 511
Hpy166II GTNNAC 1 cut(s) 134
Hpy188I TCNGA 6 cut(s) 112, 226, 414, 505, 565, 877
Hpy188III TCNNGA 4 cut(s) 343, 452, 515, 607
Hpy8I GTNNAC 1 cut(s) 134
HpyAV CCTTC 1 cut(s) 236
HpyCH4III ACNGT 2 cut(s) 371, 442
HpyCH4V TGCA 6 cut(s) 56, 155, 335, 670, 692, 886
HpyF10VI GCNNNNNNNGC 3 cut(s) 392, 698, 742
HpyF3I CTNAG 3 cut(s) 252, 281, 572
Hsp92II CATG 6 cut(s) 92, 206, 500, 734, 842, 866
HspAI GCGC 2 cut(s) 673, 695
Ksp22I TGATCA 2 cut(s) 85, 603
Kzo9I GATC 8 cut(s) 85, 221, 295, 348, 500, 517, 603, 790
LmnI GCTCC 1 cut(s) 824
LpnPI CCDG 5 cut(s) 19, 264, 837, 864, 891
Lsp1109I GCAGC 2 cut(s) 682, 704
LweI GCATC 3 cut(s) 322, 390, 657
MabI ACCWGGT 1 cut(s) 850
MaeI CTAG 1 cut(s) 599
MalI GATC 8 cut(s) 87, 223, 297, 350, 502, 519, 605, 792
MboI GATC 8 cut(s) 85, 221, 295, 348, 500, 517, 603, 790
MboII GAAGA 4 cut(s) 156, 203, 552, 671
MfeI CAATTG 1 cut(s) 465
MflI RGATCY 2 cut(s) 221, 500
MluCI AATT 6 cut(s) 28, 40, 81, 357, 465, 747
MlyI GAGTC 2 cut(s) 416, 442
MnlI CCTC 8 cut(s) 30, 247, 283, 331, 339, 448, 568, 655
MroXI GAANNNNTTC 2 cut(s) 71, 198
MseI TTAA 2 cut(s) 264, 893
MslI CAYNNNNRTG 1 cut(s) 98
MspR9I CCNGG 1 cut(s) 852
MunI CAATTG 1 cut(s) 465
MvaI CCWGG 1 cut(s) 852
MwoI GCNNNNNNNGC 3 cut(s) 392, 698, 742
NdeII GATC 8 cut(s) 85, 221, 295, 348, 500, 517, 603, 790
NlaIII CATG 6 cut(s) 92, 206, 500, 734, 842, 866
NlaIV GGNNCC 2 cut(s) 502, 820
PaeR7I CTCGAG 1 cut(s) 404
PceI AGGCCT 1 cut(s) 644
PdmI GAANNNNTTC 2 cut(s) 71, 198
PfeI GAWTC 2 cut(s) 194, 511
PflFI GACNNNGTC 1 cut(s) 13
PkrI GCNGC 3 cut(s) 106, 672, 694
Ple19I CGATCG 1 cut(s) 298
PleI GAGTC 2 cut(s) 415, 442
PpsI GAGTC 2 cut(s) 415, 442
Psp6I CCWGG 1 cut(s) 850
PspGI CCWGG 1 cut(s) 850
PspN4I GGNNCC 2 cut(s) 502, 820
PspPI GGNCC 2 cut(s) 9, 806
PspXI VCTCGAGB 1 cut(s) 404
PsuI RGATCY 2 cut(s) 221, 500
PsyI GACNNNGTC 1 cut(s) 13
PvuI CGATCG 1 cut(s) 298
RseI CAYNNNNRTG 1 cut(s) 98
SaqAI TTAA 2 cut(s) 264, 893
SatI GCNGC 3 cut(s) 105, 671, 693
Sau3AI GATC 8 cut(s) 85, 221, 295, 348, 500, 517, 603, 790
Sau96I GGNCC 2 cut(s) 9, 806
SchI GAGTC 2 cut(s) 416, 442
ScrFI CCNGG 1 cut(s) 852
SetI ASST 7 cut(s) 102, 253, 282, 342, 628, 853, 907
SexAI ACCWGGT 1 cut(s) 850
SfaNI GCATC 3 cut(s) 322, 390, 657
Sfr274I CTCGAG 1 cut(s) 404
SinI GGWCC 1 cut(s) 9
SlaI CTCGAG 1 cut(s) 404
SmiMI CAYNNNNRTG 1 cut(s) 98
SmlI CTYRAG 3 cut(s) 343, 404, 452
SmoI CTYRAG 3 cut(s) 343, 404, 452
SpeI ACTAGT 1 cut(s) 598
Sse9I AATT 6 cut(s) 28, 40, 81, 357, 465, 747
SseBI AGGCCT 1 cut(s) 644
SsiI CCGC 2 cut(s) 105, 462
SspI AATATT 2 cut(s) 70, 328
SspMI CTAG 1 cut(s) 599
StuI AGGCCT 1 cut(s) 644
StyD4I CCNGG 1 cut(s) 850
TaaI ACNGT 2 cut(s) 371, 442
TaqI TCGA 5 cut(s) 305, 398, 405, 526, 708
TasI AATT 6 cut(s) 28, 40, 81, 357, 465, 747
TauI GCSGC 1 cut(s) 107
TfiI GAWTC 2 cut(s) 194, 511
Tru1I TTAA 2 cut(s) 264, 893
Tru9I TTAA 2 cut(s) 264, 893
TscAI CASTG 2 cut(s) 179, 376
TseI GCWGC 2 cut(s) 670, 692
TspDTI ATGAA 5 cut(s) 191, 204, 606, 672, 699
TspGWI ACGGA 1 cut(s) 883
TspRI CASTG 2 cut(s) 179, 376
Tth111I GACNNNGTC 1 cut(s) 13
VpaK11BI GGWCC 1 cut(s) 9
XapI RAATTY 1 cut(s) 357
XcmI CCANNNNNNNNNTGG 1 cut(s) 30
XhoI CTCGAG 1 cut(s) 404
XmnI GAANNNNTTC 2 cut(s) 71, 198
XspI CTAG 1 cut(s) 599
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.