Gene loci information

Transcript annotation

  • This transcript has been annotated as Proteasome subunit alpha type-4.

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_3 g4076 g4076.t8 TSS g4076.t8 30464628 30464628
chr_3 g4076 g4076.t8 isoform g4076.t8 30464746 30465729
chr_3 g4076 g4076.t8 exon g4076.t8.exon1 30464746 30464748
chr_3 g4076 g4076.t8 cds g4076.t8.CDS1 30464746 30464748
chr_3 g4076 g4076.t8 exon g4076.t8.exon2 30464874 30465377
chr_3 g4076 g4076.t8 cds g4076.t8.CDS2 30464874 30465377
chr_3 g4076 g4076.t8 exon g4076.t8.exon3 30465421 30465729
chr_3 g4076 g4076.t8 cds g4076.t8.CDS3 30465421 30465432
chr_3 g4076 g4076.t8 TTS g4076.t8 30465804 30465804

Sequences

>g4076.t8 Gene=g4076 Length=816
ATGGCACGCAGATATGATTCAAGAACCACTATCTTTTCACCAGAAGGTCGTTTGTATCAA
GTAGAATATGCTATGGAGGCAATTTCGCATGCTGGTACTTGCTTAGGAATTTTAGCAAAA
GACGGAATTCTGTTGGCAGCTGAACGCCGAAATATTAATAAACTTCTCGATAATAGCATC
TTTGCTGAAAAGATTTACAGATTAAATGAAGATATGGTCTGCAGCGTTGCTGGAATTACA
TCTGATGCAAACGTTCTCACAAATGAGTTACGTTTAATTGCACAACGATATCAATTACAG
TATGATGAGCCAATTCCAGTTGAACAATTGGTTTCAAGCTTATGTGATCTAAAGCAAGCA
TACACACAATATGGTGGTAAACGTCCGTTTGGAGTATCGATTCTTTACATGGGTTGGGAT
AAGCACTATGGATATCAATTGTATCAATCAGATCCAAGTGGAAATTATAGTGGATGGAAA
GCAACATGCATTGGAAATAACGCTGCTCTCTCTTTTTAGGCTGCAATTTCCGTGCTCAAG
CAAGAATTAAATGAAACTCCGATTTCGCTTGCAGAAGCCGAAGATATGGCAATTAAAGTT
CTCTCAAAAACTCTAGACATGACTAAATTGACATCAGAGAAAATTGAAATGTCAACTTTG
ACGAGAACTGAAGAAGGAGAAACAAAAATCAAGATTCTTTCAAATCCAGAAGTTGATAAA
TTGATTGCAAATTATGAAAAGATTCAAGCTGAAGAGGAAGCAGCAAAGAAAGAAAAACTG
GCTCAACAACAAGCACAGCAGCAACAAAAATCTTAA

>g4076.t8 Gene=g4076 Length=172
MARRYDSRTTIFSPEGRLYQVEYAMEAISHAGTCLGILAKDGILLAAERRNINKLLDNSI
FAEKIYRLNEDMVCSVAGITSDANVLTNELRLIAQRYQLQYDEPIPVEQLVSSLCDLKQA
YTQYGGKRPFGVSILYMGWDKHYGYQLYQSDPSGNYSGWKATCIGNNAALSF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g4076.t8 Gene3D G3DSA:3.60.20.10 Glutamine Phosphoribosylpyrophosphate 1 171 4.3E-75
3 g4076.t8 PANTHER PTHR11599:SF13 PROTEASOME SUBUNIT ALPHA TYPE-4 1 168 2.1E-85
4 g4076.t8 PANTHER PTHR11599 PROTEASOME SUBUNIT ALPHA/BETA 1 168 2.1E-85
2 g4076.t8 Pfam PF10584 Proteasome subunit A N-terminal signature 5 27 1.0E-13
1 g4076.t8 Pfam PF00227 Proteasome subunit 29 168 6.3E-48
7 g4076.t8 ProSitePatterns PS00388 Proteasome alpha-type subunits signature. 5 27 -
8 g4076.t8 ProSitePatterns PS00854 Proteasome beta-type subunits signature. 35 82 -
10 g4076.t8 ProSiteProfiles PS51475 Proteasome alpha-type subunit profile. 20 172 64.177
6 g4076.t8 SMART SM00948 Proteasome_A_N_2 5 27 3.4E-11
5 g4076.t8 SUPERFAMILY SSF56235 N-terminal nucleophile aminohydrolases (Ntn hydrolases) 4 169 4.89E-65

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:0004298 threonine-type endopeptidase activity MF
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.

Raw TPM values