pycom09g10920

mediator of RNA polymerase II transcription

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr9
OG0013345
Physical Location & Seq
Forward (+)
9026043 .. 9027288
1246 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 636 bp
ATGTCCAACCGTAACAGGTTCCTTCTTGTTCAATTCAATCTCTGCAGTCTGCGGTGCACATATCAAAGTCCAAACCTTTTTCCATTTCCGGAGAATCTGTACGGCGGAGAGAGAATGGAGCATTCGTACTCCGGTGGCGGCGGAGGAGGAGGAAGCTGGAATATGATTCCAAGCGTGCCGACTCACAGTAACCCCTCTACGCCGTCGAGCCAGGACCATATGTACCTCCATCATCAGCAGCAGCAGCAACAACAGCAGTTTCAACAGCAGCAGCAGCGTCTTCTTCTTCAACAACAACAGCAGCAGCAGCAACAGCAACAACAGCAGCAGCAGCAGCATCACCAGTCGCTCGCCTCACATTTCCATCTCTTCCATTTGGTGGAGAAATTAGCTGACACGATCGAGAATGGAACTAGGGATCAGCAGTCTGATGCATTGGTTAGCGATCTGAAGAACCATTTTGAGAAGTGCCAGCAGCTGCTCAACTCCATATCTGGATCGATCGGCACCAAGGCTATGACGGTTGAGGGACAGAAGCGAAAGTTGGAAGAAAGTGAGCAATCGTTGCATCAGAGGAGGGACTTGATGACCAAGTACAGAAAATCTGTTGAAGACCTCCTCAAGTCTGAGCCGTAG

Protein Analysis

212

Amino Acids

24.45

Weight (kDa)

7.21

Isoelectric Point (pI)

72.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Med9 PF07544 131 - 203 7.7e-07 RNA polymerase II transcription mediator complex subunit 9
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0013345)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G29580 AT1G55080 AT1G55080
fragaria_vesca FvH4_6g33500
malus_domestica MD09G1192700.v1.1
prunus_persica Prupe.3G049000_v2.0.a1
pyrus_communis pycom09g10920
rosa_chinensis RchiOBHm_Chr2g0143361
rosa_laevigata RLG00000020032
rosa_multiflora Rmu_sc0003507.1_g000018 Rmu_sc0024801.1_g000003
rosa_roxburghii Rroxscaffold_2G00101930
rosa_rugosa Rorug02G0380900
rosa_samantha Rh2AG433800 Rh2BG441800 Rh2CG419500 Rh2DG451900
rosa_wichuraiana Rw2G035370

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 506
AccB7I CCANNNNNTGG 1 cut(s) 379
AccIII TCCGGA 1 cut(s) 88
AciI CCGC 4 cut(s) 52, 105, 138, 141
AclWI GGATC 2 cut(s) 426, 505
AcuI CTGAAG 1 cut(s) 470
AfaI GTAC 4 cut(s) 101, 128, 224, 596
AfiI CCNNNNNNNGG 1 cut(s) 379
AgsI TTSAA 5 cut(s) 32, 37, 263, 290, 611
AjnI CCWGG 1 cut(s) 210
AjuI GAANNNNNNNTTGG 2 cut(s) 527, 559
AluBI AGCT 3 cut(s) 156, 392, 478
AluI AGCT 3 cut(s) 156, 392, 478
Alw21I GWGCWC 1 cut(s) 59
Alw44I GTGCAC 1 cut(s) 55
AlwI GGATC 2 cut(s) 426, 505
AlwNI CAGNNNCTG 1 cut(s) 478
Aor13HI TCCGGA 1 cut(s) 88
ApaLI GTGCAC 1 cut(s) 55
AspS9I GGNCC 1 cut(s) 214
AsuHPI GGTGA 1 cut(s) 332
AvaII GGWCC 1 cut(s) 214
BaeGI GKGCMC 1 cut(s) 59
BanI GGYRCC 1 cut(s) 506
BbsI GAAGAC 2 cut(s) 272, 618
Bbv12I GWGCWC 1 cut(s) 59
BccI CCATC 2 cut(s) 237, 372
BceAI ACGGC 3 cut(s) 118, 187, 616
BciT130I CCWGG 1 cut(s) 212
BfaI CTAG 1 cut(s) 414
BfmI CTRYAG 1 cut(s) 43
Bme1390I CCNGG 1 cut(s) 212
Bme18I GGWCC 1 cut(s) 214
BmgT120I GGNCC 1 cut(s) 214
BmiI GGNNCC 2 cut(s) 20, 508
BmrFI CCNGG 1 cut(s) 212
BmsI GCATC 3 cut(s) 346, 421, 577
BpiI GAAGAC 2 cut(s) 272, 618
BpuEI CTTGAG 1 cut(s) 605
Bsa29I ATCGAT 1 cut(s) 500
BsaJI CCNNGG 1 cut(s) 510
BsaWI WCCGGW 2 cut(s) 88, 131
BsaXI ACNNNNNCTCC 4 cut(s) 83, 110, 113, 140
Bsc4I CCNNNNNNNGG 1 cut(s) 379
Bse1I ACTGG 1 cut(s) 343
BseAI TCCGGA 1 cut(s) 88
BseBI CCWGG 1 cut(s) 212
BseCI ATCGAT 1 cut(s) 500
BseDI CCNNGG 1 cut(s) 510
BseLI CCNNNNNNNGG 1 cut(s) 379
BseMII CTCAG 1 cut(s) 618
BseNI ACTGG 1 cut(s) 343
BseRI GAGGAG 4 cut(s) 159, 162, 589, 608
BseSI GKGCMC 1 cut(s) 59
Bsh1285I CGRYCG 2 cut(s) 402, 504
BshNI GGYRCC 1 cut(s) 506
BshVI ATCGAT 1 cut(s) 500
BsiEI CGRYCG 2 cut(s) 402, 504
BsiHKAI GWGCWC 1 cut(s) 59
BsiSI CCGG 2 cut(s) 89, 132
BslFI GGGAC 2 cut(s) 543, 593
BslI CCNNNNNNNGG 1 cut(s) 379
BsmFI GGGAC 2 cut(s) 543, 593
BsmI GAATGC 1 cut(s) 121
Bsp1286I GDGCHC 1 cut(s) 59
Bsp13I TCCGGA 1 cut(s) 88
Bsp143I GATC 5 cut(s) 399, 418, 445, 497, 501
BspACI CCGC 4 cut(s) 52, 105, 138, 141
BspCNI CTCAG 1 cut(s) 619
BspDI ATCGAT 1 cut(s) 500
BspEI TCCGGA 1 cut(s) 88
BspLI GGNNCC 2 cut(s) 20, 508
BspMAI CTGCAG 1 cut(s) 47
BspPI GGATC 2 cut(s) 426, 505
BspT107I GGYRCC 1 cut(s) 506
BsrI ACTGG 1 cut(s) 343
BssECI CCNNGG 1 cut(s) 510
BssMI GATC 5 cut(s) 399, 418, 445, 497, 501
BssT1I CCWWGG 1 cut(s) 510
Bst2UI CCWGG 1 cut(s) 212
Bst4CI ACNGT 3 cut(s) 11, 188, 523
Bst6I CTCTTC 1 cut(s) 374
BstAPI GCANNNNNTGC 1 cut(s) 565
BstC8I GCNNGC 3 cut(s) 176, 351, 473
BstDEI CTNAG 1 cut(s) 627
BstKTI GATC 5 cut(s) 402, 421, 448, 500, 504
BstMBI GATC 5 cut(s) 399, 418, 445, 497, 501
BstMCI CGRYCG 2 cut(s) 402, 504
BstMWI GCNNNNNNNGC 9 cut(s) 244, 253, 274, 307, 313, 322, 331, 334, 565
BstNI CCWGG 1 cut(s) 212
BstSCI CCNGG 1 cut(s) 210
BstSFI CTRYAG 1 cut(s) 43
BstSLI GKGCMC 1 cut(s) 59
BstV2I GAAGAC 2 cut(s) 272, 618
Bsu15I ATCGAT 1 cut(s) 500
BsuTUI ATCGAT 1 cut(s) 500
Cac8I GCNNGC 3 cut(s) 176, 351, 473
CaiI CAGNNNCTG 1 cut(s) 478
Cfr13I GGNCC 1 cut(s) 214
ClaI ATCGAT 1 cut(s) 500
CseI GACGC 1 cut(s) 266
Csp6I GTAC 4 cut(s) 100, 127, 223, 595
CviJI RGCY 6 cut(s) 156, 210, 392, 478, 515, 631
CviKI_1 RGCY 6 cut(s) 156, 210, 392, 478, 515, 631
CviQI GTAC 4 cut(s) 100, 127, 223, 595
DdeI CTNAG 1 cut(s) 627
DpnI GATC 5 cut(s) 401, 420, 447, 499, 503
DpnII GATC 5 cut(s) 399, 418, 445, 497, 501
Eam1104I CTCTTC 1 cut(s) 374
EarI CTCTTC 1 cut(s) 374
EciI GGCGGA 2 cut(s) 120, 156
Eco130I CCWWGG 1 cut(s) 510
Eco47I GGWCC 1 cut(s) 214
Eco57I CTGAAG 1 cut(s) 470
EcoRII CCWGG 1 cut(s) 210
EcoT14I CCWWGG 1 cut(s) 510
EcoT22I ATGCAT 1 cut(s) 436
ErhI CCWWGG 1 cut(s) 510
FaiI YATR 6 cut(s) 61, 164, 219, 221, 491, 518
FaqI GGGAC 2 cut(s) 543, 593
FauNDI CATATG 1 cut(s) 219
FspBI CTAG 1 cut(s) 414
HapII CCGG 2 cut(s) 89, 132
HgaI GACGC 1 cut(s) 266
HinfI GANTC 3 cut(s) 94, 166, 181
HpaII CCGG 2 cut(s) 89, 132
HphI GGTGA 1 cut(s) 332
Hpy166II GTNNAC 1 cut(s) 57
Hpy188I TCNGA 4 cut(s) 430, 450, 573, 628
Hpy188III TCNNGA 3 cut(s) 89, 403, 495
Hpy8I GTNNAC 1 cut(s) 57
Hpy99I CGWCG 1 cut(s) 208
HpyAV CCTTC 1 cut(s) 32
HpyCH4III ACNGT 3 cut(s) 11, 188, 523
HpyCH4V TGCA 4 cut(s) 45, 57, 434, 568
HpyF10VI GCNNNNNNNGC 9 cut(s) 244, 253, 274, 307, 313, 322, 331, 334, 565
HpyF3I CTNAG 1 cut(s) 627
Kpn2I TCCGGA 1 cut(s) 88
Kzo9I GATC 5 cut(s) 399, 418, 445, 497, 501
LmnI GCTCC 1 cut(s) 118
LpnPI CCDG 8 cut(s) 102, 142, 145, 197, 224, 356, 480, 485
LweI GCATC 3 cut(s) 346, 421, 577
MaeI CTAG 1 cut(s) 414
MaeIII GTNAC 2 cut(s) 11, 188
MalI GATC 5 cut(s) 401, 420, 447, 499, 503
MboI GATC 5 cut(s) 399, 418, 445, 497, 501
MboII GAAGA 7 cut(s) 272, 275, 278, 361, 463, 560, 623
MhlI GDGCHC 1 cut(s) 59
MluCI AATT 2 cut(s) 32, 386
MlyI GAGTC 1 cut(s) 175
MmeI TCCRAC 2 cut(s) 30, 525
Mph1103I ATGCAT 1 cut(s) 436
MroI TCCGGA 1 cut(s) 88
MspA1I CMGCKG 1 cut(s) 478
MspI CCGG 2 cut(s) 89, 132
MspR9I CCNGG 1 cut(s) 212
Mva1269I GAATGC 1 cut(s) 121
MvaI CCWGG 1 cut(s) 212
MwoI GCNNNNNNNGC 9 cut(s) 244, 253, 274, 307, 313, 322, 331, 334, 565
NdeI CATATG 1 cut(s) 219
NdeII GATC 5 cut(s) 399, 418, 445, 497, 501
NlaIV GGNNCC 2 cut(s) 20, 508
NsiI ATGCAT 1 cut(s) 436
PctI GAATGC 1 cut(s) 121
PfeI GAWTC 2 cut(s) 94, 166
PflMI CCANNNNNTGG 1 cut(s) 379
Ple19I CGATCG 2 cut(s) 402, 504
PleI GAGTC 1 cut(s) 175
PpsI GAGTC 1 cut(s) 175
Psp6I CCWGG 1 cut(s) 210
PspGI CCWGG 1 cut(s) 210
PspN4I GGNNCC 2 cut(s) 20, 508
PspPI GGNCC 1 cut(s) 214
PstI CTGCAG 1 cut(s) 47
PstNI CAGNNNCTG 1 cut(s) 478
PvuI CGATCG 2 cut(s) 402, 504
PvuII CAGCTG 1 cut(s) 478
RsaI GTAC 4 cut(s) 101, 128, 224, 596
RsaNI GTAC 4 cut(s) 100, 127, 223, 595
Sau3AI GATC 5 cut(s) 399, 418, 445, 497, 501
Sau96I GGNCC 1 cut(s) 214
SchI GAGTC 1 cut(s) 175
ScrFI CCNGG 1 cut(s) 212
SduI GDGCHC 1 cut(s) 59
SetI ASST 7 cut(s) 20, 78, 158, 228, 394, 480, 618
SfaNI GCATC 3 cut(s) 346, 421, 577
SfcI CTRYAG 1 cut(s) 43
SinI GGWCC 1 cut(s) 214
SmlI CTYRAG 1 cut(s) 620
SmoI CTYRAG 1 cut(s) 620
Sse9I AATT 2 cut(s) 32, 386
SsiI CCGC 4 cut(s) 52, 105, 138, 141
SspMI CTAG 1 cut(s) 414
StyD4I CCNGG 1 cut(s) 210
StyI CCWWGG 1 cut(s) 510
TaaI ACNGT 3 cut(s) 11, 188, 523
TaqI TCGA 3 cut(s) 206, 402, 500
TasI AATT 2 cut(s) 32, 386
TatI WGTACW 1 cut(s) 594
TauI GCSGC 1 cut(s) 141
TfiI GAWTC 2 cut(s) 94, 166
Van91I CCANNNNNTGG 1 cut(s) 379
VneI GTGCAC 1 cut(s) 55
VpaK11BI GGWCC 1 cut(s) 214
XspI CTAG 1 cut(s) 414
Zsp2I ATGCAT 1 cut(s) 436
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.