RchiOBHm_Chr2g0094521

mediator of RNA polymerase II transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0013016
Physical Location & Seq
Reverse (-)
7464432 .. 7467124
2693 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ46952

Sequence Viewer

Length: 654 bp
ATGCCGCTAAAATGGGTTTTGCATTGGCAACCCAATGCAGGGACGACGGTGAACAGTCAGATCATCAACGAAGTCACGCAGGTTGTGGAGAGCATCAATGGGATTAAGGAAGGCAGGTGGAAAGCCACCATCACTTTCTACAAACCCCTGCTTCGAGCAGGCTTTGGTGGGGAATACCCGCGTGATTTCTTGGGGATTGCACTGCCAGAGCAGCCAAATAAGTACTACCTTATAATCCGACCGCTTCGCATAGTTCTTGAAGCTGATTCTACGATTACAATGATTATGGAGAAACTGCAGTCTTACAAACAGAGGGTCTCGCTTAATTTTGAGGGATTTCAATATCAACTAGGGGACTTCCAATTGAGAGTGGGGAAAGTCCTTCCGAATCAGTCTGAGAATTTGAGAGGAATAGTTATGGAGGTGGAGTACCTACCCATTTCTTCAATGGAAAAGGCAAGGCAAATCATGGAAGAGTTTATGACTATATGGGATCAGGCTGTGTTGAAAAGAGCATTACCAGGCCACTTTGTGCATATGGAACCAAACTTTGGTGAGTTTGGCCTTGGAGACCAGTATACTTCACAACACACTGCCGTCCAATATGCTGCTGTTATGGCTCAACTAATTGCGACCGTGCAAGGAAGAAATTAG
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

217

Amino Acids

24.85

Weight (kDa)

6.92

Isoelectric Point (pI)

35.53

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Med20 PF08612 1 - 206 2.1e-53 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) 233
AarI CACCTGC 1 cut(s) 105
Acc36I ACCTGC 2 cut(s) 70, 105
AccB7I CCANNNNNTGG 1 cut(s) 551
AccI GTMKAC 1 cut(s) 578
AccII CGCG 1 cut(s) 181
AciI CCGC 3 cut(s) 5, 179, 242
AclWI GGATC 1 cut(s) 501
AcsI RAATTY 1 cut(s) 400
AdeI CACNNNGTG 1 cut(s) 532
AfaI GTAC 2 cut(s) 224, 431
AfiI CCNNNNNNNGG 3 cut(s) 38, 39, 551
AgsI TTSAA 4 cut(s) 260, 341, 447, 508
AjnI CCWGG 1 cut(s) 520
AjuI GAANNNNNNNTTGG 2 cut(s) 534, 566
AluBI AGCT 1 cut(s) 263
AluI AGCT 1 cut(s) 263
Alw26I GTCTC 2 cut(s) 322, 564
AlwI GGATC 1 cut(s) 501
AoxI GGCC 2 cut(s) 523, 562
ApeKI GCWGC 2 cut(s) 211, 608
ApoI RAATTY 1 cut(s) 400
ArsI GACNNNNNNTTYG 2 cut(s) 300, 332
AsuHPI GGTGA 2 cut(s) 61, 566
BbvI GCAGC 2 cut(s) 223, 595
BccI CCATC 1 cut(s) 137
BceAI ACGGC 1 cut(s) 581
BciT130I CCWGG 1 cut(s) 522
BcoDI GTCTC 2 cut(s) 322, 564
BfaI CTAG 1 cut(s) 350
BfmI CTRYAG 1 cut(s) 296
BfuAI ACCTGC 2 cut(s) 70, 105
BisI GCNGC 3 cut(s) 5, 212, 609
BlsI GCNGC 3 cut(s) 6, 213, 610
BmcAI AGTACT 1 cut(s) 224
Bme1390I CCNGG 1 cut(s) 522
BmiI GGNNCC 1 cut(s) 543
BmrFI CCNGG 1 cut(s) 522
BmsI GCATC 1 cut(s) 102
BsaI GGTCTC 2 cut(s) 322, 564
BsaJI CCNNGG 1 cut(s) 565
BsaXI ACNNNNNCTCC 2 cut(s) 413, 443
Bsc4I CCNNNNNNNGG 3 cut(s) 38, 39, 551
Bse1I ACTGG 1 cut(s) 574
BseBI CCWGG 1 cut(s) 522
BseDI CCNNGG 1 cut(s) 565
BseLI CCNNNNNNNGG 3 cut(s) 38, 39, 551
BseMII CTCAG 1 cut(s) 387
BseNI ACTGG 1 cut(s) 574
BseXI GCAGC 2 cut(s) 223, 595
Bsh1236I CGCG 1 cut(s) 181
Bsh1285I CGRYCG 2 cut(s) 242, 636
BshFI GGCC 2 cut(s) 525, 564
BsiEI CGRYCG 2 cut(s) 242, 636
BslFI GGGAC 2 cut(s) 55, 368
BslI CCNNNNNNNGG 3 cut(s) 38, 39, 551
BsmAI GTCTC 2 cut(s) 322, 564
BsmFI GGGAC 2 cut(s) 55, 368
BsnI GGCC 2 cut(s) 525, 564
Bso31I GGTCTC 2 cut(s) 322, 564
Bsp143I GATC 2 cut(s) 60, 493
BspACI CCGC 3 cut(s) 5, 179, 242
BspANI GGCC 2 cut(s) 525, 564
BspCNI CTCAG 1 cut(s) 388
BspFNI CGCG 1 cut(s) 181
BspLI GGNNCC 1 cut(s) 543
BspMAI CTGCAG 1 cut(s) 300
BspMI ACCTGC 2 cut(s) 70, 105
BspPI GGATC 1 cut(s) 501
BspTNI GGTCTC 2 cut(s) 322, 564
BsrI ACTGG 1 cut(s) 574
BssECI CCNNGG 1 cut(s) 565
BssMI GATC 2 cut(s) 60, 493
BssNAI GTATAC 1 cut(s) 579
BssT1I CCWWGG 1 cut(s) 565
Bst1107I GTATAC 1 cut(s) 579
Bst2UI CCWGG 1 cut(s) 522
Bst4CI ACNGT 3 cut(s) 49, 56, 637
Bst6I CTCTTC 1 cut(s) 468
BstC8I GCNNGC 1 cut(s) 160
BstDEI CTNAG 1 cut(s) 396
BstFNI CGCG 1 cut(s) 181
BstKTI GATC 2 cut(s) 63, 496
BstMAI GTCTC 2 cut(s) 322, 564
BstMBI GATC 2 cut(s) 60, 493
BstMCI CGRYCG 2 cut(s) 242, 636
BstMWI GCNNNNNNNGC 2 cut(s) 211, 617
BstNI CCWGG 1 cut(s) 522
BstSCI CCNGG 1 cut(s) 520
BstSFI CTRYAG 1 cut(s) 296
BstUI CGCG 1 cut(s) 181
BstV1I GCAGC 2 cut(s) 223, 595
BstZ17I GTATAC 1 cut(s) 579
BsuRI GGCC 2 cut(s) 525, 564
BtsI GCAGTG 2 cut(s) 200, 591
BtsIMutI CAGTG 2 cut(s) 200, 591
BveI ACCTGC 2 cut(s) 70, 105
Cac8I GCNNGC 1 cut(s) 160
Csp6I GTAC 2 cut(s) 223, 430
CviAII CATG 1 cut(s) 469
CviJI RGCY 8 cut(s) 125, 162, 214, 263, 500, 525, 564, 620
CviKI_1 RGCY 8 cut(s) 125, 162, 214, 263, 500, 525, 564, 620
CviQI GTAC 2 cut(s) 223, 430
DdeI CTNAG 1 cut(s) 396
DpnI GATC 2 cut(s) 62, 495
DpnII GATC 2 cut(s) 60, 493
DraIII CACNNNGTG 1 cut(s) 532
Eam1104I CTCTTC 1 cut(s) 468
EarI CTCTTC 1 cut(s) 468
Eco130I CCWWGG 1 cut(s) 565
Eco31I GGTCTC 2 cut(s) 322, 564
EcoRII CCWGG 1 cut(s) 520
EcoT14I CCWWGG 1 cut(s) 565
ErhI CCWWGG 1 cut(s) 565
FaeI CATG 1 cut(s) 472
FaqI GGGAC 2 cut(s) 55, 368
FatI CATG 1 cut(s) 468
FauI CCCGC 1 cut(s) 186
FauNDI CATATG 1 cut(s) 537
FblI GTMKAC 1 cut(s) 578
Fnu4HI GCNGC 3 cut(s) 5, 212, 609
Fsp4HI GCNGC 3 cut(s) 5, 212, 609
FspBI CTAG 1 cut(s) 350
GluI GCNGC 3 cut(s) 5, 212, 609
HaeIII GGCC 2 cut(s) 525, 564
Hin1II CATG 1 cut(s) 472
HinfI GANTC 2 cut(s) 266, 388
HphI GGTGA 2 cut(s) 61, 566
Hpy166II GTNNAC 2 cut(s) 52, 579
Hpy188I TCNGA 4 cut(s) 60, 239, 387, 397
Hpy188III TCNNGA 1 cut(s) 257
Hpy8I GTNNAC 2 cut(s) 52, 579
Hpy99I CGWCG 1 cut(s) 49
HpyAV CCTTC 2 cut(s) 104, 392
HpyCH4III ACNGT 3 cut(s) 49, 56, 637
HpyCH4V TGCA 6 cut(s) 22, 38, 200, 298, 535, 640
HpyF10VI GCNNNNNNNGC 2 cut(s) 211, 617
HpyF3I CTNAG 1 cut(s) 396
Hsp92II CATG 1 cut(s) 472
Kzo9I GATC 2 cut(s) 60, 493
Lsp1109I GCAGC 2 cut(s) 223, 595
LweI GCATC 1 cut(s) 102
MaeI CTAG 1 cut(s) 350
MaeIII GTNAC 1 cut(s) 73
MalI GATC 2 cut(s) 62, 495
MboI GATC 2 cut(s) 60, 493
MboII GAAGA 2 cut(s) 435, 485
MfeI CAATTG 1 cut(s) 362
MluCI AATT 5 cut(s) 325, 362, 400, 627, 649
MmeI TCCRAC 1 cut(s) 262
MnlI CCTC 4 cut(s) 306, 325, 401, 415
MseI TTAA 2 cut(s) 105, 324
MspR9I CCNGG 1 cut(s) 522
MunI CAATTG 1 cut(s) 362
MvaI CCWGG 1 cut(s) 522
MvnI CGCG 1 cut(s) 181
MwoI GCNNNNNNNGC 2 cut(s) 211, 617
NdeI CATATG 1 cut(s) 537
NdeII GATC 2 cut(s) 60, 493
NlaIII CATG 1 cut(s) 472
NlaIV GGNNCC 1 cut(s) 543
NmuCI GTSAC 1 cut(s) 73
PaqCI CACCTGC 1 cut(s) 105
PfeI GAWTC 2 cut(s) 266, 388
PflMI CCANNNNNTGG 1 cut(s) 551
PkrI GCNGC 3 cut(s) 6, 213, 610
PsiI TTATAA 1 cut(s) 233
Psp6I CCWGG 1 cut(s) 520
PspGI CCWGG 1 cut(s) 520
PspN4I GGNNCC 1 cut(s) 543
PstI CTGCAG 1 cut(s) 300
RsaI GTAC 2 cut(s) 224, 431
RsaNI GTAC 2 cut(s) 223, 430
SaqAI TTAA 2 cut(s) 105, 324
SatI GCNGC 3 cut(s) 5, 212, 609
Sau3AI GATC 2 cut(s) 60, 493
ScaI AGTACT 1 cut(s) 224
ScrFI CCNGG 1 cut(s) 522
SetI ASST 6 cut(s) 84, 119, 231, 265, 426, 435
SfaNI GCATC 1 cut(s) 102
SfcI CTRYAG 1 cut(s) 296
Sse9I AATT 5 cut(s) 325, 362, 400, 627, 649
SsiI CCGC 3 cut(s) 5, 179, 242
SspMI CTAG 1 cut(s) 350
StyD4I CCNGG 1 cut(s) 520
StyI CCWWGG 1 cut(s) 565
TaaI ACNGT 3 cut(s) 49, 56, 637
TaqI TCGA 1 cut(s) 154
TasI AATT 5 cut(s) 325, 362, 400, 627, 649
TatI WGTACW 1 cut(s) 222
TauI GCSGC 1 cut(s) 7
TfiI GAWTC 2 cut(s) 266, 388
Tru1I TTAA 2 cut(s) 105, 324
Tru9I TTAA 2 cut(s) 105, 324
TscAI CASTG 2 cut(s) 207, 598
TseFI GTSAC 1 cut(s) 73
TseI GCWGC 2 cut(s) 211, 608
Tsp45I GTSAC 1 cut(s) 73
TspRI CASTG 2 cut(s) 207, 598
Van91I CCANNNNNTGG 1 cut(s) 551
XapI RAATTY 1 cut(s) 400
XcmI CCANNNNNNNNNTGG 1 cut(s) 445
XmiI GTMKAC 1 cut(s) 578
XspI CTAG 1 cut(s) 350
ZrmI AGTACT 1 cut(s) 224
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.