General information for g3372.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t6 | isoform | g3372.t6 | 24953218 | 24954242 |
| chr_3 | g3372 | g3372.t6 | exon | g3372.t6.exon1 | 24953218 | 24953672 |
| chr_3 | g3372 | g3372.t6 | cds | g3372.t6.CDS1 | 24953220 | 24953672 |
| chr_3 | g3372 | g3372.t6 | exon | g3372.t6.exon2 | 24953761 | 24953972 |
| chr_3 | g3372 | g3372.t6 | cds | g3372.t6.CDS2 | 24953761 | 24953972 |
| chr_3 | g3372 | g3372.t6 | exon | g3372.t6.exon3 | 24954179 | 24954242 |
| chr_3 | g3372 | g3372.t6 | cds | g3372.t6.CDS3 | 24954179 | 24954242 |
| chr_3 | g3372 | g3372.t6 | TSS | g3372.t6 | 24954794 | 24954794 |
| chr_3 | g3372 | g3372.t6 | TTS | g3372.t6 | NA | NA |
Sequences
>g3372.t6 Gene=g3372 Length=731
ATGGCACCAGTTCGTGGTGATGGAATGCGAGGACTTGCAGTTTTCATTTCAGATATACGA
AACTGCAAAAGCAAAGAATCTGAAGTAAAACGTATGAATAAAGAATTGGCAAATATTCGT
AGTAAATTCAAAGGTGATAAGACATTAGACGGTTATCAGAAAAAGAAATATGTGTGTAAG
CTGCTATTCATCTTCCTTCTTGGTCATGACATCGATTTTGGTCATATGGAAGCTGTCAAC
TTACTTTCTTCGAACAAATATTCTGAGAAACAAATTGGTTATCTTTTTATTTCCGTACTT
GTAAACACCAACAGTGATCTGATAAAGCTCATTATTCAGAGCATAAAAAATGATTTGCAA
TCACGTAATCCAATTCATGTAAATTTGGCACTGCAATGTATTGCCAATATTGGTAGTCAA
GATATGGCTGAAGCTTTTTCCAACGAAATTCCAAAACTTTTAGTTTCTGGAGATACAATG
GATGTTGTGAAACAATCGGCAGCTCTTTGCTTATTGCGACTATTTCGCACATGTCCAGAG
ATCATTCCTGGTGGCGAATGGACTAGTCGTATTATTCATTTGCTCAATGATCATCATATG
GGTGTAGTTACAGCTGCAACAAGTCTTATTGATGCTTTGGTAAAGAAAAATCCTGAAGAA
TATAAGGGTTGTGTCAGTTTAGCTGTATCGAGATTATCGCGCATTTTCACAAGCAGTTAT
ACAGATCTTCA
>g3372.t6 Gene=g3372 Length=243
MAPVRGDGMRGLAVFISDIRNCKSKESEVKRMNKELANIRSKFKGDKTLDGYQKKKYVCK
LLFIFLLGHDIDFGHMEAVNLLSSNKYSEKQIGYLFISVLVNTNSDLIKLIIQSIKNDLQ
SRNPIHVNLALQCIANIGSQDMAEAFSNEIPKLLVSGDTMDVVKQSAALCLLRLFRTCPE
IIPGGEWTSRIIHLLNDHHMGVVTAATSLIDALVKKNPEEYKGCVSLAVSRLSRIFTSSY
TDL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g3372.t6 | Coils | Coil | Coil | 22 | 42 | - |
| 5 | g3372.t6 | Gene3D | G3DSA:1.25.10.10 | - | 2 | 243 | 2.0E-92 |
| 2 | g3372.t6 | PANTHER | PTHR22780:SF33 | AP-2 COMPLEX SUBUNIT ALPHA-1 | 4 | 241 | 3.1E-133 |
| 3 | g3372.t6 | PANTHER | PTHR22780 | ADAPTIN, ALPHA/GAMMA/EPSILON | 4 | 241 | 3.1E-133 |
| 1 | g3372.t6 | Pfam | PF01602 | Adaptin N terminal region | 30 | 237 | 2.5E-59 |
| 4 | g3372.t6 | SUPERFAMILY | SSF48371 | ARM repeat | 8 | 242 | 4.87E-53 |
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:0030117 | membrane coat | CC |
| 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. There were no conditions that were differentially expressed