Rh2BG092900

mediator of RNA polymerase II transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2B
OG0013016
Physical Location & Seq
Reverse (-)
7259664 .. 7261340
1677 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2BG092900.1

Sequence Viewer

Length: 666 bp
ATGCCGCTAAAATGGGTTTTGCATTGGCAACCCAATGCAGGGACGACGGTGAACAGTCAGATCATCAACGAAGTCACGCAGGTTGTGGAGAGCATCAATGGGATCAAGGAAGGCAGGTGGAAAGCCACCATCACTTTCTACAAACCCCTGCTTCGAGAGCAGGCTTTGGTGGGGGAATACCCGCGTGATTTCTTGGGGATTGCACTGCCAGAGCAGCCAAATAAGTACTACCTTATAATCCGACCGCTTCGCATTGTTCTTGAAGCTGATTCTACGATTACAATGATTATGGAGAAACTGCAGTCTTACAAACAGAGGGTCTCGCTTAATTTTGAGGGATTTCAATATCAACTAGGGGACTTCCAATTGAGAGTGGGGAAAGTCCTTCCGAATCACTCTGAGAATTTGAGAGGAATAGTTATGGAGGTGGAGTACCTACCCATTTCTTCAATGGAAAAGGCAAGGCAAATCATGGAAGAGTTTATGACTATATGGGATCAGGCTGTGTCGAAAAGAGCATTACCAGGCCACTTTGTGCATATGGAACCAAACTTTGGTGAGTTTGGCCTTGGAGACCAGTATACTTCACAACACACTGCCGTCCAATATGCTGCTGTTATGGCTCAACTAATTGCGACCGTGCAAGCAGTGCAAGGAAGAAATTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0002831 GO:0003674 GO:0003712 GO:0003713 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006139 GO:0006351 GO:0006355 GO:0006357 GO:0006366 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009891 GO:0009892 GO:0009893 GO:0009966 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010605 GO:0010608 GO:0010628 GO:0010629 GO:0010646 GO:0014070 GO:0016070 GO:0016441 GO:0016458 GO:0016592 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0023051 GO:0031047 GO:0031050 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031347 GO:0031974 GO:0031981 GO:0032101 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0035194 GO:0035195 GO:0035196 GO:0040029 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043331 GO:0043900 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0045893 GO:0045935 GO:0045944 GO:0046483 GO:0048518 GO:0048519 GO:0048522 GO:0048583 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0051716 GO:0060255 GO:0065007 GO:0070013 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0080090 GO:0080134 GO:0090304 GO:0097659 GO:0140110 GO:1900150 GO:1901360 GO:1901362 GO:1901576 GO:1901698 GO:1901699 GO:1902680 GO:1903506 GO:1903508 GO:2000031 GO:2000112 GO:2001023 GO:2001038 GO:2001141
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Med20

Protein Analysis

221

Amino Acids

25.34

Weight (kDa)

6.53

Isoelectric Point (pI)

33.74

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Med20 PF08612 1 - 207 2.9e-54 TATA-binding related factor (TRF) of subunit 20 of Mediator complex
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: OG0013016)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G28230 AT2G28230 AT4G09070
fragaria_vesca FvH4_1g08420
malus_domestica MD15G1215700.v1.1 MD15G1215800.v1.1
prunus_persica Prupe.7G201200_v2.0.a1
pyrus_communis pycom02g07100 pycom15g19140
rosa_chinensis RchiOBHm_Chr2g0094521
rosa_laevigata RLG00000016498
rosa_multiflora Rmu_sc0004359.1_g000043
rosa_roxburghii Rroxscaffold_2G00147100
rosa_rugosa Rorug02G0044400
rosa_samantha Rh2AG092700 Rh2BG092900 Rh2CG095400 Rh2DG091800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 236
AarI CACCTGC 1 cut(s) 105
Acc36I ACCTGC 2 cut(s) 70, 105
AccB7I CCANNNNNTGG 1 cut(s) 554
AccI GTMKAC 1 cut(s) 581
AccII CGCG 1 cut(s) 184
AciI CCGC 3 cut(s) 5, 182, 245
AclWI GGATC 2 cut(s) 110, 504
AcsI RAATTY 1 cut(s) 403
AdeI CACNNNGTG 1 cut(s) 535
AfaI GTAC 2 cut(s) 227, 434
AfiI CCNNNNNNNGG 3 cut(s) 38, 39, 554
AgsI TTSAA 3 cut(s) 263, 344, 450
AjnI CCWGG 1 cut(s) 523
AjuI GAANNNNNNNTTGG 2 cut(s) 537, 569
AluBI AGCT 1 cut(s) 266
AluI AGCT 1 cut(s) 266
Alw26I GTCTC 2 cut(s) 325, 567
AlwI GGATC 2 cut(s) 110, 504
AoxI GGCC 2 cut(s) 526, 565
ApeKI GCWGC 2 cut(s) 214, 611
ApoI RAATTY 1 cut(s) 403
ArsI GACNNNNNNTTYG 2 cut(s) 303, 335
AsuHPI GGTGA 2 cut(s) 61, 569
BbvI GCAGC 2 cut(s) 226, 598
BccI CCATC 1 cut(s) 137
BceAI ACGGC 1 cut(s) 584
BciT130I CCWGG 1 cut(s) 525
BcoDI GTCTC 2 cut(s) 325, 567
BfaI CTAG 1 cut(s) 353
BfmI CTRYAG 1 cut(s) 299
BfuAI ACCTGC 2 cut(s) 70, 105
BisI GCNGC 3 cut(s) 5, 215, 612
BlsI GCNGC 3 cut(s) 6, 216, 613
BmcAI AGTACT 1 cut(s) 227
Bme1390I CCNGG 1 cut(s) 525
BmiI GGNNCC 1 cut(s) 546
BmrFI CCNGG 1 cut(s) 525
BmsI GCATC 1 cut(s) 102
BsaI GGTCTC 2 cut(s) 325, 567
BsaJI CCNNGG 1 cut(s) 568
BsaXI ACNNNNNCTCC 2 cut(s) 416, 446
Bsc4I CCNNNNNNNGG 3 cut(s) 38, 39, 554
Bse1I ACTGG 1 cut(s) 577
BseBI CCWGG 1 cut(s) 525
BseDI CCNNGG 1 cut(s) 568
BseLI CCNNNNNNNGG 3 cut(s) 38, 39, 554
BseMII CTCAG 1 cut(s) 390
BseNI ACTGG 1 cut(s) 577
BseXI GCAGC 2 cut(s) 226, 598
Bsh1236I CGCG 1 cut(s) 184
Bsh1285I CGRYCG 2 cut(s) 245, 639
BshFI GGCC 2 cut(s) 528, 567
BsiEI CGRYCG 2 cut(s) 245, 639
BslFI GGGAC 2 cut(s) 55, 371
BslI CCNNNNNNNGG 3 cut(s) 38, 39, 554
BsmAI GTCTC 2 cut(s) 325, 567
BsmFI GGGAC 2 cut(s) 55, 371
BsnI GGCC 2 cut(s) 528, 567
Bso31I GGTCTC 2 cut(s) 325, 567
Bsp143I GATC 3 cut(s) 60, 102, 496
BspACI CCGC 3 cut(s) 5, 182, 245
BspANI GGCC 2 cut(s) 528, 567
BspCNI CTCAG 1 cut(s) 391
BspFNI CGCG 1 cut(s) 184
BspLI GGNNCC 1 cut(s) 546
BspMAI CTGCAG 1 cut(s) 303
BspMI ACCTGC 2 cut(s) 70, 105
BspPI GGATC 2 cut(s) 110, 504
BspTNI GGTCTC 2 cut(s) 325, 567
BsrI ACTGG 1 cut(s) 577
BssECI CCNNGG 1 cut(s) 568
BssMI GATC 3 cut(s) 60, 102, 496
BssNAI GTATAC 1 cut(s) 582
BssT1I CCWWGG 1 cut(s) 568
Bst1107I GTATAC 1 cut(s) 582
Bst2UI CCWGG 1 cut(s) 525
Bst4CI ACNGT 3 cut(s) 49, 56, 640
Bst6I CTCTTC 1 cut(s) 471
BstAPI GCANNNNNTGC 1 cut(s) 649
BstC8I GCNNGC 2 cut(s) 162, 645
BstDEI CTNAG 1 cut(s) 399
BstFNI CGCG 1 cut(s) 184
BstKTI GATC 3 cut(s) 63, 105, 499
BstMAI GTCTC 2 cut(s) 325, 567
BstMBI GATC 3 cut(s) 60, 102, 496
BstMCI CGRYCG 2 cut(s) 245, 639
BstMWI GCNNNNNNNGC 4 cut(s) 157, 214, 620, 649
BstNI CCWGG 1 cut(s) 525
BstSCI CCNGG 1 cut(s) 523
BstSFI CTRYAG 1 cut(s) 299
BstUI CGCG 1 cut(s) 184
BstV1I GCAGC 2 cut(s) 226, 598
BstZ17I GTATAC 1 cut(s) 582
BsuRI GGCC 2 cut(s) 528, 567
BtsI GCAGTG 3 cut(s) 203, 594, 654
BtsIMutI CAGTG 3 cut(s) 203, 594, 654
BveI ACCTGC 2 cut(s) 70, 105
Cac8I GCNNGC 2 cut(s) 162, 645
Csp6I GTAC 2 cut(s) 226, 433
CviAII CATG 1 cut(s) 472
CviJI RGCY 8 cut(s) 125, 164, 217, 266, 503, 528, 567, 623
CviKI_1 RGCY 8 cut(s) 125, 164, 217, 266, 503, 528, 567, 623
CviQI GTAC 2 cut(s) 226, 433
DdeI CTNAG 1 cut(s) 399
DpnI GATC 3 cut(s) 62, 104, 498
DpnII GATC 3 cut(s) 60, 102, 496
DraIII CACNNNGTG 1 cut(s) 535
Eam1104I CTCTTC 1 cut(s) 471
EarI CTCTTC 1 cut(s) 471
Eco130I CCWWGG 1 cut(s) 568
Eco31I GGTCTC 2 cut(s) 325, 567
EcoRII CCWGG 1 cut(s) 523
EcoT14I CCWWGG 1 cut(s) 568
ErhI CCWWGG 1 cut(s) 568
FaeI CATG 1 cut(s) 475
FaqI GGGAC 2 cut(s) 55, 371
FatI CATG 1 cut(s) 471
FauI CCCGC 1 cut(s) 189
FauNDI CATATG 1 cut(s) 540
FblI GTMKAC 1 cut(s) 581
Fnu4HI GCNGC 3 cut(s) 5, 215, 612
Fsp4HI GCNGC 3 cut(s) 5, 215, 612
FspBI CTAG 1 cut(s) 353
GluI GCNGC 3 cut(s) 5, 215, 612
HaeIII GGCC 2 cut(s) 528, 567
Hin1II CATG 1 cut(s) 475
HinfI GANTC 2 cut(s) 269, 391
HphI GGTGA 2 cut(s) 61, 569
Hpy166II GTNNAC 2 cut(s) 52, 582
Hpy188I TCNGA 4 cut(s) 60, 242, 390, 400
Hpy188III TCNNGA 2 cut(s) 155, 260
Hpy8I GTNNAC 2 cut(s) 52, 582
Hpy99I CGWCG 1 cut(s) 49
HpyAV CCTTC 2 cut(s) 104, 395
HpyCH4III ACNGT 3 cut(s) 49, 56, 640
HpyCH4V TGCA 7 cut(s) 22, 38, 203, 301, 538, 643, 652
HpyF10VI GCNNNNNNNGC 4 cut(s) 157, 214, 620, 649
HpyF3I CTNAG 1 cut(s) 399
Hsp92II CATG 1 cut(s) 475
Kzo9I GATC 3 cut(s) 60, 102, 496
Lsp1109I GCAGC 2 cut(s) 226, 598
LweI GCATC 1 cut(s) 102
MaeI CTAG 1 cut(s) 353
MaeIII GTNAC 1 cut(s) 73
MalI GATC 3 cut(s) 62, 104, 498
MboI GATC 3 cut(s) 60, 102, 496
MboII GAAGA 2 cut(s) 438, 488
MfeI CAATTG 1 cut(s) 365
MluCI AATT 5 cut(s) 328, 365, 403, 630, 661
MmeI TCCRAC 1 cut(s) 265
MnlI CCTC 4 cut(s) 309, 328, 404, 418
MseI TTAA 1 cut(s) 327
MspR9I CCNGG 1 cut(s) 525
MunI CAATTG 1 cut(s) 365
MvaI CCWGG 1 cut(s) 525
MvnI CGCG 1 cut(s) 184
MwoI GCNNNNNNNGC 4 cut(s) 157, 214, 620, 649
NdeI CATATG 1 cut(s) 540
NdeII GATC 3 cut(s) 60, 102, 496
NlaIII CATG 1 cut(s) 475
NlaIV GGNNCC 1 cut(s) 546
NmuCI GTSAC 1 cut(s) 73
PaqCI CACCTGC 1 cut(s) 105
PfeI GAWTC 2 cut(s) 269, 391
PflMI CCANNNNNTGG 1 cut(s) 554
PkrI GCNGC 3 cut(s) 6, 216, 613
PsiI TTATAA 1 cut(s) 236
Psp6I CCWGG 1 cut(s) 523
PspGI CCWGG 1 cut(s) 523
PspN4I GGNNCC 1 cut(s) 546
PstI CTGCAG 1 cut(s) 303
RsaI GTAC 2 cut(s) 227, 434
RsaNI GTAC 2 cut(s) 226, 433
SaqAI TTAA 1 cut(s) 327
SatI GCNGC 3 cut(s) 5, 215, 612
Sau3AI GATC 3 cut(s) 60, 102, 496
ScaI AGTACT 1 cut(s) 227
ScrFI CCNGG 1 cut(s) 525
SetI ASST 6 cut(s) 84, 119, 234, 268, 429, 438
SfaNI GCATC 1 cut(s) 102
SfcI CTRYAG 1 cut(s) 299
Sse9I AATT 5 cut(s) 328, 365, 403, 630, 661
SsiI CCGC 3 cut(s) 5, 182, 245
SspMI CTAG 1 cut(s) 353
StyD4I CCNGG 1 cut(s) 523
StyI CCWWGG 1 cut(s) 568
TaaI ACNGT 3 cut(s) 49, 56, 640
TaqI TCGA 2 cut(s) 154, 509
TasI AATT 5 cut(s) 328, 365, 403, 630, 661
TatI WGTACW 1 cut(s) 225
TauI GCSGC 1 cut(s) 7
TfiI GAWTC 2 cut(s) 269, 391
Tru1I TTAA 1 cut(s) 327
Tru9I TTAA 1 cut(s) 327
TscAI CASTG 3 cut(s) 210, 601, 654
TseFI GTSAC 1 cut(s) 73
TseI GCWGC 2 cut(s) 214, 611
Tsp45I GTSAC 1 cut(s) 73
TspRI CASTG 3 cut(s) 210, 601, 654
Van91I CCANNNNNTGG 1 cut(s) 554
XapI RAATTY 1 cut(s) 403
XcmI CCANNNNNNNNNTGG 1 cut(s) 448
XmiI GTMKAC 1 cut(s) 581
XspI CTAG 1 cut(s) 353
ZrmI AGTACT 1 cut(s) 227
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.