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.t2 isoform g4076.t2 30464599 30465729
chr_3 g4076 g4076.t2 exon g4076.t2.exon1 30464599 30464732
chr_3 g4076 g4076.t2 TSS g4076.t2 30464628 30464628
chr_3 g4076 g4076.t2 exon g4076.t2.exon2 30464874 30465377
chr_3 g4076 g4076.t2 cds g4076.t2.CDS1 30464943 30465377
chr_3 g4076 g4076.t2 exon g4076.t2.exon3 30465433 30465729
chr_3 g4076 g4076.t2 cds g4076.t2.CDS2 30465433 30465729
chr_3 g4076 g4076.t2 TTS g4076.t2 30465804 30465804

Sequences

>g4076.t2 Gene=g4076 Length=935
GTTTCCGAATTCAACGAACAACAAAAGTTTGTCTTTTATTTACAATCTCTCATCGTAAAC
GTAAATTTTGTAATTTAAAGAGAAATTCAATAAAATTTATAATTCTTCTCACTGTATCGT
GATTCTAATAAAAAGCACGCAGATATGATTCAAGAACCACTATCTTTTCACCAGAAGGTC
GTTTGTATCAAGTAGAATATGCTATGGAGGCAATTTCGCATGCTGGTACTTGCTTAGGAA
TTTTAGCAAAAGACGGAATTCTGTTGGCAGCTGAACGCCGAAATATTAATAAACTTCTCG
ATAATAGCATCTTTGCTGAAAAGATTTACAGATTAAATGAAGATATGGTCTGCAGCGTTG
CTGGAATTACATCTGATGCAAACGTTCTCACAAATGAGTTACGTTTAATTGCACAACGAT
ATCAATTACAGTATGATGAGCCAATTCCAGTTGAACAATTGGTTTCAAGCTTATGTGATC
TAAAGCAAGCATACACACAATATGGTGGTAAACGTCCGTTTGGAGTATCGATTCTTTACA
TGGGTTGGGATAAGCACTATGGATATCAATTGTATCAATCAGATCCAAGTGGAAATTATA
GTGGATGGAAAGCAACATGCATTGGAAATAACGCTGCTGCTGCAATTTCCGTGCTCAAGC
AAGAATTAAATGAAACTCCGATTTCGCTTGCAGAAGCCGAAGATATGGCAATTAAAGTTC
TCTCAAAAACTCTAGACATGACTAAATTGACATCAGAGAAAATTGAAATGTCAACTTTGA
CGAGAACTGAAGAAGGAGAAACAAAAATCAAGATTCTTTCAAATCCAGAAGTTGATAAAT
TGATTGCAAATTATGAAAAGATTCAAGCTGAAGAGGAAGCAGCAAAGAAAGAAAAACTGG
CTCAACAACAAGCACAGCAGCAACAAAAATCTTAA

>g4076.t2 Gene=g4076 Length=243
MEAISHAGTCLGILAKDGILLAAERRNINKLLDNSIFAEKIYRLNEDMVCSVAGITSDAN
VLTNELRLIAQRYQLQYDEPIPVEQLVSSLCDLKQAYTQYGGKRPFGVSILYMGWDKHYG
YQLYQSDPSGNYSGWKATCIGNNAAAAISVLKQELNETPISLAEAEDMAIKVLSKTLDMT
KLTSEKIEMSTLTRTEEGETKIKILSNPEVDKLIANYEKIQAEEEAAKKEKLAQQQAQQQ
QKS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g4076.t2 Coils Coil Coil 210 242 -
6 g4076.t2 Gene3D G3DSA:3.60.20.10 Glutamine Phosphoribosylpyrophosphate 1 233 1.8E-73
2 g4076.t2 PANTHER PTHR11599:SF13 PROTEASOME SUBUNIT ALPHA TYPE-4 1 219 1.4E-86
3 g4076.t2 PANTHER PTHR11599 PROTEASOME SUBUNIT ALPHA/BETA 1 219 1.4E-86
1 g4076.t2 Pfam PF00227 Proteasome subunit 5 191 2.9E-57
5 g4076.t2 ProSitePatterns PS00854 Proteasome beta-type subunits signature. 11 58 -
8 g4076.t2 ProSiteProfiles PS51475 Proteasome alpha-type subunit profile. 1 214 76.939
4 g4076.t2 SUPERFAMILY SSF56235 N-terminal nucleophile aminohydrolases (Ntn hydrolases) 1 225 1.12E-60

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: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