General information for g3372.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative AP-2 complex subunit alpha.
Parent gene
- The parent gene g3372 is located on chr_3: 24953761..24955498 (- 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 | g3372 | g3372.t4 | TTS | g3372.t4 | 24950597 | 24950597 |
| chr_3 | g3372 | g3372.t4 | isoform | g3372.t4 | 24950853 | 24951792 |
| chr_3 | g3372 | g3372.t4 | exon | g3372.t4.exon1 | 24950853 | 24951792 |
| chr_3 | g3372 | g3372.t4 | cds | g3372.t4.CDS1 | 24951440 | 24951763 |
| chr_3 | g3372 | g3372.t4 | TSS | g3372.t4 | NA | NA |
Sequences
>g3372.t4 Gene=g3372 Length=940
AGTATGTATTCACATTTTTTTTACAAATTATGCATAAAAATCTTAATAATTTGTTTTATT
GCAGATTCTTGTTTAAAAACAATGGTGTTTTGTTTGAAAATGAAATGATTCAGATTGGTG
TAAAGAGCGAATTCAGACAAAATTTGGGAAGATTGGGATTGTTCTATGGCAATAAGACTC
AAGTGCCACTCACAAATTTCCAGCCCGTTTTACAGTGGAACACAGAAGATTCTAAAAATC
TTAATGTACAAATAAAGGCAGTTGACTCAACTCTAGATGCTGGTGCACAAATTCAACAAA
TGTTAACAGCTGAATGCATAGACAGCTATTCTGGTGAGTTTAAGGAAAATTAACATCAGT
TTTGTATTTTTCAAAAATTATGCATTTTTAGATTCTCCATCTTTACAATTGTCATTCCGA
TATAATGGTACACCACAAAGCTTCACTATCAAACTACCACTTACAGTAAATAAATTCTTC
GAACCAACTGAAATGAACTCGGAATCATTTTTTGCAAGATGGAAAAATTTGGGAGGGTAA
GTAAATTTATTTTTTTATTTGTGAAATATCTTTAATTTGCATTTTATTTTTGTAGAGAAA
AACAGCGTGCTCAAAAAGTTTTCAAAGCTCAACTTCCACTCGATTTGCCAGGTGCAAAAA
ACAAATTATCTGGCTTTGGTGTGCAACTTTTAGAAGGTATTGATCCTAATCCCGATAATA
TGGTGTGTGCTGGAATCATTCATACACAATCACATCAAGTTGGTTGTTTACTCAGATTAG
AACCTAACAAACAGGCACAGGTATGTTTCAGATTCTCTCAAAATCTTTAATTTTGATGTT
TTGAAATAATTTTTTTTTATAGATGTTCCGTTTGACAGTGAGAGCTAGTAAAGAACAAGT
GACTAATGAAATATGCAATCTGCTTGTTGACCAATTTTAA
>g3372.t4 Gene=g3372 Length=107
MHKNLNNLFYCRFLFKNNGVLFENEMIQIGVKSEFRQNLGRLGLFYGNKTQVPLTNFQPV
LQWNTEDSKNLNVQIKAVDSTLDAGAQIQQMLTAECIDSYSGEFKEN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g3372.t4 | Gene3D | G3DSA:2.60.40.1230 | - | 2 | 104 | 0 |
| 2 | g3372.t4 | PANTHER | PTHR22780:SF33 | AP-2 COMPLEX SUBUNIT ALPHA-1 | 8 | 100 | 0 |
| 3 | g3372.t4 | PANTHER | PTHR22780 | ADAPTIN, ALPHA/GAMMA/EPSILON | 8 | 100 | 0 |
| 1 | g3372.t4 | Pfam | PF02883 | Adaptin C-terminal domain | 17 | 96 | 0 |
| 5 | g3372.t4 | SMART | SM00809 | alpha_adaptinc2 | 11 | 105 | 0 |
| 4 | g3372.t4 | SUPERFAMILY | SSF49348 | Clathrin adaptor appendage domain | 9 | 100 | 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:0006886 | intracellular protein transport | BP |
| GO:0016192 | vesicle-mediated transport | 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.
