General information for g669.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Transcription initiation factor TFIID subunit 12.
Parent gene
- The parent gene g669 is located on chr_3: 5172552..5173075 (+ 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_3 | g669 | g669.t2 | TSS | g669.t2 | 5172324 | 5172324 |
| chr_3 | g669 | g669.t2 | isoform | g669.t2 | 5172437 | 5173075 |
| chr_3 | g669 | g669.t2 | exon | g669.t2.exon1 | 5172437 | 5172440 |
| chr_3 | g669 | g669.t2 | exon | g669.t2.exon2 | 5172495 | 5172668 |
| chr_3 | g669 | g669.t2 | cds | g669.t2.CDS1 | 5172552 | 5172668 |
| chr_3 | g669 | g669.t2 | exon | g669.t2.exon3 | 5172734 | 5173075 |
| chr_3 | g669 | g669.t2 | cds | g669.t2.CDS2 | 5172734 | 5173075 |
| chr_3 | g669 | g669.t2 | TTS | g669.t2 | 5173135 | 5173135 |
Sequences
>g669.t2 Gene=g669 Length=520
ATAGGACTTAAATTTTAGGATCATAATTTATAAACAAAGTACATTCAATAAGTGATAAGC
AATGGATTCAGAATTAAGTGATTTCGTTTCACCTTCTCAAAGCTCTCCATCAACTTCGAC
TACACCAAGCGGAAGCCAAAATAAAAATACATCAGGATCAGAAAATAATGCAACAGTCCT
TTTAACAAAACCAAGACTGCAGGAATTAGTTAGAGAAGTTGATCCCAATGAACAACTTGA
CGAAGATGTTGAAGACTGCCTTCTGCAAATAGCAGATGAATTTGTTGAAAATGTGATAAA
TGGATCATGTTTATTAGCAAAACATCGCATACAAAATGGACAACCGAATCGTGAGAACAA
AGTAGAAGTGAAAGACGTACAATTATATCTAGAAAGAACTTATAATATTTGGATTCCTGG
CTTTGGTACAGAAGAACTTAGACCTTACAAAAGAACAACGATCACAGAAGCTCATAAGCA
GCGACAAGCTCTCATCAGAAAAGCACTCAAAAAATATTAA
>g669.t2 Gene=g669 Length=152
MDSELSDFVSPSQSSPSTSTTPSGSQNKNTSGSENNATVLLTKPRLQELVREVDPNEQLD
EDVEDCLLQIADEFVENVINGSCLLAKHRIQNGQPNRENKVEVKDVQLYLERTYNIWIPG
FGTEELRPYKRTTITEAHKQRQALIRKALKKY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g669.t2 | CDD | cd07981 | TAF12 | 41 | 116 | 2.21402E-32 |
| 6 | g669.t2 | Gene3D | G3DSA:1.10.20.10 | Histone | 37 | 118 | 8.0E-28 |
| 5 | g669.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 39 | - |
| 2 | g669.t2 | PANTHER | PTHR12264:SF21 | TRANSCRIPTION INITIATION FACTOR TFIID SUBUNIT 12 | 11 | 151 | 1.9E-49 |
| 3 | g669.t2 | PANTHER | PTHR12264 | TRANSCRIPTION INITIATION FACTOR TFIID SUBUNIT 12 | 11 | 151 | 1.9E-49 |
| 1 | g669.t2 | Pfam | PF03847 | Transcription initiation factor TFIID subunit A | 42 | 116 | 1.1E-25 |
| 4 | g669.t2 | SUPERFAMILY | SSF47113 | Histone-fold | 40 | 118 | 6.58E-16 |
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:0000124 | SAGA complex | CC |
| GO:0046982 | protein heterodimerization activity | MF |
| GO:0046695 | SLIK (SAGA-like) complex | CC |
| GO:0005669 | transcription factor TFIID complex | CC |
| GO:0006352 | DNA-templated transcription, initiation | BP |
KEGG
Orthology
- This transcript has been annotated with K03126 (transcription initiation factor TFIID subunit 12)
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.
