General information for g11811.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Transcription initiation factor TFIID subunit 9.
Parent gene
- The parent gene g11811 is located on chr_1: 18528478..18529656 (- strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_1 | g11811 | g11811.t2 | isoform | g11811.t2 | 18520131 | 18528478 |
| chr_1 | g11811 | g11811.t2 | exon | g11811.t2.exon1 | 18520131 | 18520137 |
| chr_1 | g11811 | g11811.t2 | exon | g11811.t2.exon2 | 18527559 | 18528172 |
| chr_1 | g11811 | g11811.t2 | cds | g11811.t2.CDS1 | 18527623 | 18528172 |
| chr_1 | g11811 | g11811.t2 | exon | g11811.t2.exon3 | 18528234 | 18528326 |
| chr_1 | g11811 | g11811.t2 | cds | g11811.t2.CDS2 | 18528234 | 18528326 |
| chr_1 | g11811 | g11811.t2 | exon | g11811.t2.exon4 | 18528393 | 18528478 |
| chr_1 | g11811 | g11811.t2 | cds | g11811.t2.CDS3 | 18528393 | 18528478 |
| chr_1 | g11811 | g11811.t2 | TSS | g11811.t2 | 18528568 | 18528568 |
| chr_1 | g11811 | g11811.t2 | TTS | g11811.t2 | NA | NA |
Sequences
>g11811.t2 Gene=g11811 Length=800
ATGGAAGAAACTAAAGAGAAAATAAAAAATACAAACCAATCAAAGCAATTACCTAAAGAT
GCTCAAGTTATAATTTCTATATTACGTGATTTGGGTTTAGAGAGCTTTGAACCAAGAGTA
ATTAATCAGTTGCTGGAATTCACTTACCGATACGTTACAACAATTTTAGAAGACGCAAAG
GTCTATGCAAATCATTCAAAGAAAAAAGGTATTGATTTAGAAGATGTTAAATTGGCATCA
ACAATGTTGTTGGACAAATCATTCACTGGACCACCGCCTAGAGAAGTTCTCTTTGAAGTA
GCCAAACAAAAGAATACACAGCCTTTACCAACAATCAAACCTCACTCTGGAATAAGATTA
CCTCCCGACCGTCATTGTCTTTTAGCTGCAAATTTTAAATTAAGAGCAGCTACATCGCAA
GCTCCAACCAAAAAACTTGTTAGATCTGCACTCGAAGGCAGTACAATAAAAACAAAACTT
GTAAGCTCGAGCAGTAGCTCGCCAAATATCAATATTGGTATCAAAAAGACCTCTACTACA
TTAGGTCAAACAACAAACAAAACTTCAAGTGTTTCAATTCCCAAACCAACTTTTAAAGTA
TCGAAACCAGTTAATAAACCTCTTCCGACTGTATCGAATGAAGGAGATGTAATTAAAATG
GATATTGATCAAGAAGGTTCCATAATCAAAAGAAAACGATCTGAAGATGATTTTGATCAT
TTATCTTAAAAATTCTATAACTTTTTGACACATATTTTTAATAAAAATGAATACAAAAAA
AGGATTAATTTTGTTTTGCA
>g11811.t2 Gene=g11811 Length=242
MEETKEKIKNTNQSKQLPKDAQVIISILRDLGLESFEPRVINQLLEFTYRYVTTILEDAK
VYANHSKKKGIDLEDVKLASTMLLDKSFTGPPPREVLFEVAKQKNTQPLPTIKPHSGIRL
PPDRHCLLAANFKLRAATSQAPTKKLVRSALEGSTIKTKLVSSSSSSPNINIGIKKTSTT
LGQTTNKTSSVSIPKPTFKVSKPVNKPLPTVSNEGDVIKMDIDQEGSIIKRKRSEDDFDH
LS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g11811.t2 | CDD | cd07979 | TAF9 | 18 | 134 | 0 |
| 4 | g11811.t2 | Gene3D | G3DSA:1.10.20.10 | Histone | 18 | 85 | 0 |
| 2 | g11811.t2 | PANTHER | PTHR48068 | TAF9 RNA POLYMERASE II, TATA BOX-BINDING PROTEIN (TBP)-ASSOCIATED FACTOR | 4 | 198 | 0 |
| 1 | g11811.t2 | Pfam | PF02291 | Transcription initiation factor IID, 31kD subunit | 15 | 134 | 0 |
| 3 | g11811.t2 | SUPERFAMILY | SSF47113 | Histone-fold | 19 | 82 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0046982 | protein heterodimerization activity | MF |
| GO:0006352 | DNA-templated transcription, initiation | BP |
KEGG
Orthology
- This transcript has been annotated with K03133 (transcription initiation factor TFIID subunit 9B)
Pathway
- This transcript belongs to the following pathways
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.
