Gene loci information

Transcript annotation

  • This transcript has been annotated as AP-3 complex subunit delta.

Parent gene

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_1 g13822 g13822.t2 isoform g13822.t2 32609586 32610618
chr_1 g13822 g13822.t2 exon g13822.t2.exon1 32609586 32609930
chr_1 g13822 g13822.t2 cds g13822.t2.CDS1 32609586 32609930
chr_1 g13822 g13822.t2 exon g13822.t2.exon2 32609994 32610188
chr_1 g13822 g13822.t2 cds g13822.t2.CDS2 32609994 32610188
chr_1 g13822 g13822.t2 exon g13822.t2.exon3 32610290 32610385
chr_1 g13822 g13822.t2 cds g13822.t2.CDS3 32610290 32610385
chr_1 g13822 g13822.t2 exon g13822.t2.exon4 32610511 32610618
chr_1 g13822 g13822.t2 cds g13822.t2.CDS4 32610511 32610618
chr_1 g13822 g13822.t2 TSS g13822.t2 32610824 32610824
chr_1 g13822 g13822.t2 TTS g13822.t2 NA NA

Sequences

>g13822.t2 Gene=g13822 Length=744
ATGTCTTTAAATCTTAATATTAAGCAAGTAAAAGGCAATTTGCAGCGTTTATTTGATAAA
AACCTGACTGACTTGGTTCGTGGACTACGAAATAACAAAGATAATGAGGCAAGTTATATT
GCTCAGTGCATTGAAGAGATTAAACAGGAATTACGGATTGACAATATCAGCGTTAAATGT
AATGCTGTCGCGAAATTAACTTATATTCAAATGTGCGGCTACGATATTTCGTGGGCTGGA
TTTAATGTCATCGAAGTCATGAGTTCAAATAAATTTACTTGTAAACGTGTTGGTTATTTA
GCGGCCTCTCAAAGCTTCCATCCAGGCACTGATCTTTTAATGTTAACTACGAATATGATA
CGAAAAGATCTCAGTTCAACAAATCAATATGATGCTGGAGTTGCACTGAGCGGTTTAAGT
TGCTTCATTTCACCAGATTTATCGCGAGATTTGGCAAATGATATAATGACATTGATGAGC
TCCACTAAACCATATTTACGAATGAAAGCCGTCCTTATGATGTATAAGGTTTTTTTAAAT
CATCCAGAAGCACTTCGACCGGCTTTTCCAAAACTTAAAGAAAAATTAGAAGATCCAGAT
CCAGGAGTTCAATCTGCTGCCGTAAATGTGATTTGTGAATTAGCACGAAAGAATCCTAAG
AATTATCTCTCGTTAGCTCCTATATTCTTTAAATTGATGACTACTTCTACCAATAATTGG
ATGCTCATAAAAATTATCAAACTT

>g13822.t2 Gene=g13822 Length=248
MSLNLNIKQVKGNLQRLFDKNLTDLVRGLRNNKDNEASYIAQCIEEIKQELRIDNISVKC
NAVAKLTYIQMCGYDISWAGFNVIEVMSSNKFTCKRVGYLAASQSFHPGTDLLMLTTNMI
RKDLSSTNQYDAGVALSGLSCFISPDLSRDLANDIMTLMSSTKPYLRMKAVLMMYKVFLN
HPEALRPAFPKLKEKLEDPDPGVQSAAVNVICELARKNPKNYLSLAPIFFKLMTTSTNNW
MLIKIIKL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g13822.t2 Gene3D G3DSA:1.25.10.10 - 19 248 0
2 g13822.t2 PANTHER PTHR22781 DELTA ADAPTIN-RELATED 11 248 0
3 g13822.t2 PANTHER PTHR22781:SF12 AP-3 COMPLEX SUBUNIT DELTA-1 11 248 0
1 g13822.t2 Pfam PF01602 Adaptin N terminal region 37 248 0
4 g13822.t2 SUPERFAMILY SSF48371 ARM repeat 33 247 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:0030117 membrane coat CC
GO:0030123 AP-3 adaptor complex CC
GO:0015031 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. There were no conditions that were differentially expressed