General information for g14458.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as AP-3 complex subunit mu-1.
Parent gene
- The parent gene g14458 is located on chr_4: 683999..685218 (+ 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 | g14458 | g14458.t6 | TSS | g14458.t6 | 683697 | 683697 |
| chr_4 | g14458 | g14458.t6 | isoform | g14458.t6 | 683999 | 685218 |
| chr_4 | g14458 | g14458.t6 | exon | g14458.t6.exon1 | 683999 | 685218 |
| chr_4 | g14458 | g14458.t6 | cds | g14458.t6.CDS1 | 684003 | 684713 |
| chr_4 | g14458 | g14458.t6 | TTS | g14458.t6 | 685374 | 685374 |
Sequences
>g14458.t6 Gene=g14458 Length=1220
ATCAATGAACTCAACAAATCTCGTCTCAATTAACCGTTGTGGTGTTTATTTTGTTACTGT
CTGTAAATCAGAAATTTCGCCACTTTTTGTGATTGAATTTTTGCATCGAGTTGTTGATAT
TTTTGTTGATTATTTCAATGAATGCAATGAGACTGTAATTAAAGAAAATTATGTAGTTAT
TTATGAATTACTTGATGAAATGCTTGATAACGGATTCCCTTTGGCAACAGAATCTAACGT
TTTAAAAGAACTTATTAAACCTCCAAATGTTTTTCGGACAATTGCAAATTCAGTAACTGG
AAAAACTAATTTCAGTGACACTTTGCCTGTCGGTTCACTCTCAGCAATTCCGTGGCGAAA
GTCTGGTGTCAAATATACAAATAATGAAGCATATTTTGATGTTATTGAAGAAGTTGATGC
AATTATTGACAAATCTGGTTCGACAATTTTTGCTGAAATTTCTGGTGAAATCCAGTGTTT
GATTAAACTTAGCGGCATGCCTGATCTTTCATTATCATTTGTCAATCCACGAATTCTCGA
TGACGTTTCATTCCATCCATGTGTTAGATTTAAGCGATGGGAAACTGAAAGAGTTTTGAG
CTTCATTCCACCTGATGGCGGTTTTCGGTTGATGTCGTATCATGTTACATCACAAAGTGT
TCCGATTCCAATTTATTTAAGACATGTTAGTAGAAATTTCTCTTTAAATATTTAATTATT
CACAATTAAAATAATTTTTTAGAACATTCATCTCAAAACAGGCGAACAAGGTCGACTTGA
CATCACTGTTGGTCCAAAAACAACACTTGGTCGAACACTTGAGAGTGTAAAACTTGAAAT
TTTGTTCCCCAAAAGTGTCGTGAATTGCAGTCTCGTGACCACTCAAGGAAAATATGTTTT
TGATCAAAATTCAAAAATTCTTAATTGGGATGTTGGCAAAATTGATGTTCAAAAGTTGCC
GAATATTAGAGGAAGTGTAACAGTTATGGCAGGAACAACTATTGAATCAATGCCATCAAT
TAATGTGCAATTTACAATCTCACAATTGGCAGTTTCGGGATTGAAAGTTAATCGATTAGA
TATGTACGGAGATGTAAAATACAAACCTTTCAAAGGTAAATTAGAATTTTTTGATTAAAA
CAATTTTTATATTATTTTTACTTAAATTAATAGGTGTTAAATATGTAACCAAGGCAGGAA
AATTCCAAATTCGTCTTTAA
>g14458.t6 Gene=g14458 Length=236
MNSTNLVSINRCGVYFVTVCKSEISPLFVIEFLHRVVDIFVDYFNECNETVIKENYVVIY
ELLDEMLDNGFPLATESNVLKELIKPPNVFRTIANSVTGKTNFSDTLPVGSLSAIPWRKS
GVKYTNNEAYFDVIEEVDAIIDKSGSTIFAEISGEIQCLIKLSGMPDLSLSFVNPRILDD
VSFHPCVRFKRWETERVLSFIPPDGGFRLMSYHVTSQSVPIPIYLRHVSRNFSLNI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g14458.t6 | CDD | cd14837 | AP3_Mu_N | 2 | 89 | 3.34062E-44 |
| 9 | g14458.t6 | Gene3D | G3DSA:3.30.450.60 | - | 1 | 90 | 4.0E-31 |
| 10 | g14458.t6 | Gene3D | G3DSA:2.60.40.1170 | - | 116 | 220 | 2.3E-50 |
| 3 | g14458.t6 | PANTHER | PTHR10529:SF342 | AP-3 COMPLEX SUBUNIT MU-1 | 5 | 228 | 4.4E-117 |
| 4 | g14458.t6 | PANTHER | PTHR10529 | AP COMPLEX SUBUNIT MU | 5 | 228 | 4.4E-117 |
| 6 | g14458.t6 | PRINTS | PR00314 | Clathrin coat assembly protein signature | 49 | 76 | 5.6E-21 |
| 5 | g14458.t6 | PRINTS | PR00314 | Clathrin coat assembly protein signature | 178 | 205 | 5.6E-21 |
| 2 | g14458.t6 | Pfam | PF01217 | Clathrin adaptor complex small chain | 6 | 78 | 4.8E-7 |
| 1 | g14458.t6 | Pfam | PF00928 | Adaptor complexes medium subunit family | 115 | 227 | 4.4E-42 |
| 13 | g14458.t6 | ProSitePatterns | PS00990 | Clathrin adaptor complexes medium chain signature 1. | 115 | 135 | - |
| 12 | g14458.t6 | ProSitePatterns | PS00991 | Clathrin adaptor complexes medium chain signature 2. | 198 | 212 | - |
| 14 | g14458.t6 | ProSiteProfiles | PS51072 | Mu homology domain (MHD) profile. | 126 | 236 | 23.422 |
| 7 | g14458.t6 | SUPERFAMILY | SSF64356 | SNARE-like | 2 | 89 | 6.71E-26 |
| 8 | g14458.t6 | SUPERFAMILY | SSF49447 | Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor | 115 | 229 | 1.57E-45 |
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.
