Gene loci information

Transcript annotation

  • This transcript has been annotated as Proteasome subunit beta 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 g11646 g11646.t7 TTS g11646.t7 17611332 17611332
chr_1 g11646 g11646.t7 isoform g11646.t7 17611396 17612077
chr_1 g11646 g11646.t7 exon g11646.t7.exon1 17611396 17611920
chr_1 g11646 g11646.t7 cds g11646.t7.CDS1 17611396 17611869
chr_1 g11646 g11646.t7 exon g11646.t7.exon2 17611999 17612077
chr_1 g11646 g11646.t7 TSS g11646.t7 17612172 17612172

Sequences

>g11646.t7 Gene=g11646 Length=604
ATGTCTATTATGGCTTATAATGGTGGTTGCGTAGTCGCAATGAAAGGAAAAGAATGTGTA
GCGATCGCAACTGATCTTCGCTCAAACGATTGATACCAACTTTGAAAAAGTATTTCCAGT
GAATAAACACATGTATTTGGGATTAGCTGGACTCCAGACAGATATAATAACCGTTTACAA
GAGATTAATGTTCCGAAAAAATCTCTATGAAATTCGTGAAAATCGTGTAATGCAACCAGA
AAGATTTGCAGCAATGCTTTCAAGTTTTCTTTATGAGCATCGATTTGGCCCATATTTCAT
TGAACCAGTAATTGCAGGATTAGATCCAAAAACTTTTAAACCTTTCATATGCAATATGGA
TCTTATCGGTTGTGCAAACATGCCTGATGATTTTGTTGTTGCTGGAACTTGCGAGGAACA
ACTTTTTGGCATGTGTGAGACATTGTGGCGTGAGAATATGGAACCGGATGATTTATTTGA
AACAATCTCACAAGCCATGTTAAATGCATTTGATCGTGACGCCATTTCAGGATGGGGAGC
TAAAGTCTATATTATTGAAAAAGATAAAGTTACAATAAGAAAGCTTAAAACTCGTATGGA
TTAG

>g11646.t7 Gene=g11646 Length=157
MYLGLAGLQTDIITVYKRLMFRKNLYEIRENRVMQPERFAAMLSSFLYEHRFGPYFIEPV
IAGLDPKTFKPFICNMDLIGCANMPDDFVVAGTCEEQLFGMCETLWRENMEPDDLFETIS
QAMLNAFDRDAISGWGAKVYIIEKDKVTIRKLKTRMD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g11646.t7 CDD cd03759 proteasome_beta_type_3 1 153 4.47419E-98
6 g11646.t7 Coils Coil Coil 142 157 -
5 g11646.t7 Gene3D G3DSA:3.60.20.10 Glutamine Phosphoribosylpyrophosphate 1 157 1.1E-39
2 g11646.t7 PANTHER PTHR11599 PROTEASOME SUBUNIT ALPHA/BETA 1 151 2.6E-61
3 g11646.t7 PANTHER PTHR11599:SF62 PROTEASOME SUBUNIT BETA TYPE-3 1 151 2.6E-61
1 g11646.t7 Pfam PF00227 Proteasome subunit 1 142 4.9E-27
7 g11646.t7 ProSiteProfiles PS51476 Proteasome beta-type subunit profile. 1 142 34.483
4 g11646.t7 SUPERFAMILY SSF56235 N-terminal nucleophile aminohydrolases (Ntn hydrolases) 1 157 5.5E-38

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:0051603 proteolysis involved in cellular protein catabolic process BP
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process BP
GO:0019774 proteasome core complex, beta-subunit complex CC
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