General information for g11811.t56
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.t56 | TTS | g11811.t56 | 18527574 | 18527574 |
| chr_1 | g11811 | g11811.t56 | isoform | g11811.t56 | 18527623 | 18528478 |
| chr_1 | g11811 | g11811.t56 | exon | g11811.t56.exon1 | 18527623 | 18528326 |
| chr_1 | g11811 | g11811.t56 | cds | g11811.t56.CDS1 | 18527623 | 18528108 |
| chr_1 | g11811 | g11811.t56 | exon | g11811.t56.exon2 | 18528393 | 18528478 |
| chr_1 | g11811 | g11811.t56 | TSS | g11811.t56 | 18528568 | 18528568 |
Sequences
>g11811.t56 Gene=g11811 Length=790
ATGGAAGAAACTAAAGAGAAAATAAAAAATACAAACCAATCAAAGCAATTACCTAAAGAT
GCTCAAGTTATAATTTCTATATTACGTGATTTGGGTTTAGAGAGCTTTGAACCAAGAGTA
ATTAATCAGTTGCTGGAATTCACTTACCGATACGTTACAACAATTTTAGAAGACGCAAAG
TATTATCAGTTAAAAATATTTATGAAAAAAAGTATCTTTACTAATTTTTTTAAAATATAG
GGTCTATGCAAATCATTCAAAGAAAAAAGGTATTGATTTAGAAGATGTTAAATTGGCATC
AACAATGTTGTTGGACAAATCATTCACTGGACCACCGCCTAGAGAAGTTCTCTTTGAAGT
AGCCAAACAAAAGAATACACAGCCTTTACCAACAATCAAACCTCACTCTGGAATAAGATT
ACCTCCCGACCGTCATTGTCTTTTAGCTGCAAATTTTAAATTAAGAGCAGCTACATCGCA
AGCTCCAACCAAAAAACTTGTTAGATCTGCACTCGAAGGCAGTACAATAAAAACAAAACT
TGTAAGCTCGAGCAGTAGCTCGCCAAATATCAATATTGGTATCAAAAAGACCTCTACTAC
ATTAGGTCAAACAACAAACAAAACTTCAAGTGTTTCAATTCCCAAACCAACTTTTAAAGT
ATCGAAACCAGTTAATAAACCTCTTCCGACTGTATCGAATGAAGGAGATGTAATTAAAAT
GGATATTGATCAAGAAGGTTCCATAATCAAAAGAAAACGATCTGAAGATGATTTTGATCA
TTTATCTTAA
>g11811.t56 Gene=g11811 Length=161
MLLDKSFTGPPPREVLFEVAKQKNTQPLPTIKPHSGIRLPPDRHCLLAANFKLRAATSQA
PTKKLVRSALEGSTIKTKLVSSSSSSPNINIGIKKTSTTLGQTTNKTSSVSIPKPTFKVS
KPVNKPLPTVSNEGDVIKMDIDQEGSIIKRKRSEDDFDHLS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g11811.t56 | PANTHER | PTHR48068:SF3 | TRANSCRIPTION INITIATION FACTOR TFIID SUBUNIT 9 | 4 | 124 | 0 |
| 3 | g11811.t56 | PANTHER | PTHR48068 | TAF9 RNA POLYMERASE II, TATA BOX-BINDING PROTEIN (TBP)-ASSOCIATED FACTOR | 4 | 124 | 0 |
| 1 | g11811.t56 | Pfam | PF02291 | Transcription initiation factor IID, 31kD subunit | 3 | 53 | 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:0006352 | DNA-templated transcription, initiation | BP |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
