Gene loci information

Transcript annotation

  • This transcript has been annotated as Proteasome subunit beta type-5.

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 g11293 g11293.t5 TTS g11293.t5 15467253 15467253
chr_1 g11293 g11293.t5 isoform g11293.t5 15467315 15468246
chr_1 g11293 g11293.t5 exon g11293.t5.exon1 15467315 15467472
chr_1 g11293 g11293.t5 cds g11293.t5.CDS1 15467315 15467472
chr_1 g11293 g11293.t5 exon g11293.t5.exon2 15467584 15468058
chr_1 g11293 g11293.t5 cds g11293.t5.CDS2 15467584 15468058
chr_1 g11293 g11293.t5 exon g11293.t5.exon3 15468115 15468246
chr_1 g11293 g11293.t5 cds g11293.t5.CDS3 15468115 15468246
chr_1 g11293 g11293.t5 TSS g11293.t5 15468344 15468344

Sequences

>g11293.t5 Gene=g11293 Length=765
ATGGCTCTTAATGATATATTGAAGCATATGCCTTCCGTTGGCGATATGTTAAGCGATTAC
AAATCTACTGAAGAAATGGATTTCATCAATTTATCTCAAAATAAAGTTCTCAGTGCTCCA
CCGTATAGTAATCCTGTTGAAAATCTTGCTAAATTGCATGAAAACAATGATAATATAAAG
ATCAATTTTGACCATGGAACAACTACACTCGGATTCATTTATCAAGGAGGAGTAGTATTG
GCTGTTGACAGTAGAGCAACTGGAGGTCAATATATTGGATCACAATCAGTTCGTAAAGTT
GTTGAAATTAATGATTTATTGCTTGGCACACTCGCTGGAGGTGCAGCTGATTGCACATAT
TGGTATAGAGTTCTCACAAGTGAATGTCGTTTATATGAATTGCGAAATAAGAAGAAAATT
TCATTAGCTGCTGCTACAAAAATTATGAATAACATCATCTATTCGTATAAAAACTCTGGT
CTCAGCATGGGAATGATCTTAGCTGGTGGTGACATGAATCAAGTTAGCTTATATTATTTA
GATTCAGATGGCACAAGAACTATGGGAAAAGTGTTTTCTGTTGGTAGCGGTTCAATTTTT
GCATATGAATTGGGACGTCGTTCGATTTATCATGCAACTCATCGTGATGCTTATTCTGGT
GGCACTGTTCGAGTTTATCATGTAAAGAAAGATGGATGGAATTTGATTTCAGAGGAAGAC
TGCTTGGATCTTCATCGTCGCTATGAAGCAGAGAAGAAGAAATAA

>g11293.t5 Gene=g11293 Length=254
MALNDILKHMPSVGDMLSDYKSTEEMDFINLSQNKVLSAPPYSNPVENLAKLHENNDNIK
INFDHGTTTLGFIYQGGVVLAVDSRATGGQYIGSQSVRKVVEINDLLLGTLAGGAADCTY
WYRVLTSECRLYELRNKKKISLAAATKIMNNIIYSYKNSGLSMGMILAGGDMNQVSLYYL
DSDGTRTMGKVFSVGSGSIFAYELGRRSIYHATHRDAYSGGTVRVYHVKKDGWNLISEED
CLDLHRRYEAEKKK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g11293.t5 CDD cd03761 proteasome_beta_type_5 67 237 1.50014E-102
8 g11293.t5 Coils Coil Coil 241 254 -
7 g11293.t5 Gene3D G3DSA:3.60.20.10 Glutamine Phosphoribosylpyrophosphate 67 254 2.3E-61
2 g11293.t5 PANTHER PTHR11599:SF63 PROTEASOME SUBUNIT BETA 56 246 3.4E-69
3 g11293.t5 PANTHER PTHR11599 PROTEASOME SUBUNIT ALPHA/BETA 56 246 3.4E-69
4 g11293.t5 PRINTS PR00141 Proteasome component signature 74 89 3.1E-5
5 g11293.t5 PRINTS PR00141 Proteasome component signature 195 206 3.1E-5
1 g11293.t5 Pfam PF00227 Proteasome subunit 64 204 7.4E-31
10 g11293.t5 ProSitePatterns PS00854 Proteasome beta-type subunits signature. 70 117 -
11 g11293.t5 ProSiteProfiles PS51476 Proteasome beta-type subunit profile. 66 254 28.244
6 g11293.t5 SUPERFAMILY SSF56235 N-terminal nucleophile aminohydrolases (Ntn hydrolases) 45 248 1.49E-54

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: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