General information for g15820.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as AP-1 complex subunit mu-1.
Parent gene
- The parent gene g15820 is located on chr_4: 6886175..6887605 (- 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_4 | g15820 | g15820.t1 | isoform | g15820.t1 | 6886175 | 6887605 |
| chr_4 | g15820 | g15820.t1 | exon | g15820.t1.exon1 | 6886175 | 6886192 |
| chr_4 | g15820 | g15820.t1 | cds | g15820.t1.CDS1 | 6886175 | 6886192 |
| chr_4 | g15820 | g15820.t1 | exon | g15820.t1.exon2 | 6886426 | 6886698 |
| chr_4 | g15820 | g15820.t1 | cds | g15820.t1.CDS2 | 6886426 | 6886698 |
| chr_4 | g15820 | g15820.t1 | exon | g15820.t1.exon3 | 6886754 | 6886775 |
| chr_4 | g15820 | g15820.t1 | cds | g15820.t1.CDS3 | 6886754 | 6886775 |
| chr_4 | g15820 | g15820.t1 | exon | g15820.t1.exon4 | 6886824 | 6887235 |
| chr_4 | g15820 | g15820.t1 | cds | g15820.t1.CDS4 | 6886824 | 6887235 |
| chr_4 | g15820 | g15820.t1 | exon | g15820.t1.exon5 | 6887545 | 6887605 |
| chr_4 | g15820 | g15820.t1 | cds | g15820.t1.CDS5 | 6887545 | 6887605 |
| chr_4 | g15820 | g15820.t1 | TSS | g15820.t1 | NA | NA |
| chr_4 | g15820 | g15820.t1 | TTS | g15820.t1 | NA | NA |
Sequences
>g15820.t1 Gene=g15820 Length=786
ATGGATTGTAACGTGATTCTTATGCGTCGGCAAGGCACTACGACCGCGTCAGGGTGGTGT
GAACTTGAAGAAGAATCAATTCGTGATAATTTTGTAATAATTTATGAACTTCTTGATGAA
CTTATTGATTTTGGTTATCCACAAACAACAGATAGTAAAATTTTACAAGAATACATCACA
CAAGAAGGACATAAACTTGAAATTCAACCTCGAATTCCAATGGCTGTCACAAATGCCGTT
TCATGGCGTTCAGAAGGAATAAAATATCGTAAAAATGAAGTTTTTTGGGATGTCATTGAA
AGTGTAAATCTTTTGGCAAATGCAAATGGAAATGTTTTACGTAGTGAAATTGTTGGTGCA
ATAAAAATGCGAGTTTATCTTTCGGCATGCCAGAATTACGTCTTGGTCTCAATGACAAAG
TCCTTTTTGAGTCAACCGGTCGTGGCAAGTCAAAATCAATTGAACTTGAAGATGACAATT
TCTTTTATACCACCGGATGGTGAATTTGAGCTCATGACCTACCGTAATAGTGCACATATG
AAACCACTTATTTGGATTGAATCTGTGATTGAAAGACATGCACATAGTCGAGTTGAGTAC
ATGATCAAGGCAAAATCACAATTTAAAAAGGCGTTCGACAGCAAAAATGTCGAAATTATT
ATTCCTGTACCAAATGATGCTGACAGTCCTAAATTTAAAACTACTATTGGAAGTGTAAAA
TATACACCAGAACAAAGTGCTGTTACAGGAGTATTAAATCTTTTCCTGGTGGAAAAGAAT
TTCTAA
>g15820.t1 Gene=g15820 Length=261
MDCNVILMRRQGTTTASGWCELEEESIRDNFVIIYELLDELIDFGYPQTTDSKILQEYIT
QEGHKLEIQPRIPMAVTNAVSWRSEGIKYRKNEVFWDVIESVNLLANANGNVLRSEIVGA
IKMRVYLSACQNYVLVSMTKSFLSQPVVASQNQLNLKMTISFIPPDGEFELMTYRNSAHM
KPLIWIESVIERHAHSRVEYMIKAKSQFKKAFDSKNVEIIIPVPNDADSPKFKTTIGSVK
YTPEQSAVTGVLNLFLVEKNF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g15820.t1 | Gene3D | G3DSA:3.30.450.60 | - | 9 | 67 | 4.0E-19 |
| 10 | g15820.t1 | Gene3D | G3DSA:2.60.40.1170 | - | 81 | 158 | 1.4E-17 |
| 11 | g15820.t1 | Gene3D | G3DSA:2.60.40.1170 | - | 182 | 254 | 1.6E-20 |
| 2 | g15820.t1 | PANTHER | PTHR10529:SF257 | AP-1 COMPLEX SUBUNIT MU-1 | 20 | 260 | 1.4E-108 |
| 3 | g15820.t1 | PANTHER | PTHR10529 | AP COMPLEX SUBUNIT MU | 20 | 260 | 1.4E-108 |
| 4 | g15820.t1 | PRINTS | PR00314 | Clathrin coat assembly protein signature | 24 | 51 | 1.6E-26 |
| 5 | g15820.t1 | PRINTS | PR00314 | Clathrin coat assembly protein signature | 82 | 110 | 1.6E-26 |
| 1 | g15820.t1 | Pfam | PF00928 | Adaptor complexes medium subunit family | 80 | 248 | 1.0E-38 |
| 8 | g15820.t1 | ProSitePatterns | PS00991 | Clathrin adaptor complexes medium chain signature 2. | 160 | 174 | - |
| 12 | g15820.t1 | ProSiteProfiles | PS51072 | Mu homology domain (MHD) profile. | 91 | 261 | 22.943 |
| 6 | g15820.t1 | SUPERFAMILY | SSF64356 | SNARE-like | 20 | 64 | 2.61E-14 |
| 7 | g15820.t1 | SUPERFAMILY | SSF49447 | Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor | 80 | 248 | 3.14E-43 |
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:0030131 | clathrin adaptor complex | 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.
