Gene loci information

Transcript annotation

  • This transcript has been annotated as Proteasome subunit alpha type-3.

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 g11495 g11495.t7 TSS g11495.t7 16626322 16626322
chr_1 g11495 g11495.t7 isoform g11495.t7 16626368 16627254
chr_1 g11495 g11495.t7 exon g11495.t7.exon1 16626368 16626388
chr_1 g11495 g11495.t7 cds g11495.t7.CDS1 16626368 16626388
chr_1 g11495 g11495.t7 exon g11495.t7.exon2 16626447 16626513
chr_1 g11495 g11495.t7 cds g11495.t7.CDS2 16626447 16626513
chr_1 g11495 g11495.t7 exon g11495.t7.exon3 16626574 16626653
chr_1 g11495 g11495.t7 cds g11495.t7.CDS3 16626574 16626653
chr_1 g11495 g11495.t7 exon g11495.t7.exon4 16626718 16627254
chr_1 g11495 g11495.t7 cds g11495.t7.CDS4 16626718 16627254
chr_1 g11495 g11495.t7 TTS g11495.t7 16627359 16627359

Sequences

>g11495.t7 Gene=g11495 Length=705
ATGAGTTCAATTGGTACAGGATATGATTTGAGTGCAAGTCAATTTTCGCCGGATGGTCGA
GTTTTTCAAGTCGAATATGCAATGAAAGTAGAAAAAGTCATAACTAGCAAATTGCACGAA
CCTGATTCGGGCAGAAGAATCTTTACGATTGAAAACTCAATAGGAATGGTAATTTGCGGT
CTCATTACAGACGGACGCGCAATTGTAAATTATGCATTGAAAGAAGCTCAAAATTATCGC
AGAGAGTATGGACAAACTATTCCATTGAAGATTTTGAATGAGAGACTCTCTAGCTTATTT
CATGCATATACACTATACAGTGCAGTTCGACCTTATGGCATTTGCATTATTCTCACAACA
TGGACTGAGCAAAATGGTGCTGAAATGTATTGTATTGAACCATCAGGCGTTTCTTTTGGA
TATTATGGATGCGCCACAGGAAAAGCAAAACAAGCCGCTAAAACTGAAATCGAAAAGCTT
AAACTGAATACACTTACAGCTCGTGAGTTATTAAATGAAGGAGCGAAAATTATTTATCGT
GTGAACGAAGATTCAAGCGATAGTGATACAAAATTCAAGCTAGAATTATCATGGGTTGGA
AAAGACACAAATGGAATTCATCAAATCTGTCCGGTCAATTTATATGAAGAAGCGAAAGCA
GCTGCAACTGCTGCAATGGAACAAGGTGACAGTGATGTTGAATAA

>g11495.t7 Gene=g11495 Length=234
MSSIGTGYDLSASQFSPDGRVFQVEYAMKVEKVITSKLHEPDSGRRIFTIENSIGMVICG
LITDGRAIVNYALKEAQNYRREYGQTIPLKILNERLSSLFHAYTLYSAVRPYGICIILTT
WTEQNGAEMYCIEPSGVSFGYYGCATGKAKQAAKTEIEKLKLNTLTARELLNEGAKIIYR
VNEDSSDSDTKFKLELSWVGKDTNGIHQICPVNLYEEAKAAATAAMEQGDSDVE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g11495.t7 Gene3D G3DSA:3.60.20.10 Glutamine Phosphoribosylpyrophosphate 1 230 0.0000000
3 g11495.t7 PANTHER PTHR11599:SF10 PROTEASOME SUBUNIT ALPHA TYPE-3 1 230 0.0000000
4 g11495.t7 PANTHER PTHR11599 PROTEASOME SUBUNIT ALPHA/BETA 1 230 0.0000000
2 g11495.t7 Pfam PF10584 Proteasome subunit A N-terminal signature 8 29 0.0000000
1 g11495.t7 Pfam PF00227 Proteasome subunit 30 192 0.0000000
8 g11495.t7 ProSiteProfiles PS51475 Proteasome alpha-type subunit profile. 30 219 40.3360000
6 g11495.t7 SMART SM00948 Proteasome_A_N_2 8 30 0.0000001
5 g11495.t7 SUPERFAMILY SSF56235 N-terminal nucleophile aminohydrolases (Ntn hydrolases) 6 209 0.0000000

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:0019773 proteasome core complex, alpha-subunit complex CC
GO:0051603 proteolysis involved in cellular protein catabolic process BP
GO:0006511 ubiquitin-dependent protein catabolic process BP
GO:0005839 proteasome core complex CC

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