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.t4 TTS g11293.t4 15467253 15467253
chr_1 g11293 g11293.t4 isoform g11293.t4 15467315 15468246
chr_1 g11293 g11293.t4 exon g11293.t4.exon1 15467315 15467472
chr_1 g11293 g11293.t4 cds g11293.t4.CDS1 15467315 15467472
chr_1 g11293 g11293.t4 exon g11293.t4.exon2 15467533 15468010
chr_1 g11293 g11293.t4 cds g11293.t4.CDS2 15467533 15468010
chr_1 g11293 g11293.t4 exon g11293.t4.exon3 15468115 15468246
chr_1 g11293 g11293.t4 cds g11293.t4.CDS3 15468115 15468246
chr_1 g11293 g11293.t4 TSS g11293.t4 15468344 15468344

Sequences

>g11293.t4 Gene=g11293 Length=768
ATGGCTCTTAATGATATATTGAAGCATATGCCTTCCGTTGGCGATATGTTAAGCGATTAC
AAATCTACTGAAGAAATGGATTTCATCAATTTATCTCAAAATAAAGTTCTCAGTGCTCCA
CCGTATAGTAATATCAATTTTGACCATGGAACAACTACACTCGGATTCATTTATCAAGGA
GGAGTAGTATTGGCTGTTGACAGTAGAGCAACTGGAGGTCAATATATTGGATCACAATCA
GTTCGTAAAGTTGTTGAAATTAATGATTTATTGCTTGGCACACTCGCTGGAGGTGCAGCT
GATTGCACATATTGGTATAGAGTTCTCACAAGTGAATGTCGTTTATATGAATTGCGAAAT
AAGAAGAAAATTTCATTAGCTGCTGCTACAAAAATTATGAATAACATCATCTATTCGTAT
AAAAACTCTGGTCTCAGCATGGGAATGATCTTAGCTGGTGGTGACATGAATCAAGTTAGC
TTATATTATTTAGATTCAGATGGCACAAGAACTATGGGAAAAGTGTTTTCTGTTGGTAGC
GGTTCAATTTTTGCATATGGTGTTTTAGATTCTGGATATAAATGGGAATTAACTGATGAA
CAAGCATATGAATTGGGACGTCGTTCGATTTATCATGCAACTCATCGTGATGCTTATTCT
GGTGGCACTGTTCGAGTTTATCATGTAAAGAAAGATGGATGGAATTTGATTTCAGAGGAA
GACTGCTTGGATCTTCATCGTCGCTATGAAGCAGAGAAGAAGAAATAA

>g11293.t4 Gene=g11293 Length=255
MALNDILKHMPSVGDMLSDYKSTEEMDFINLSQNKVLSAPPYSNINFDHGTTTLGFIYQG
GVVLAVDSRATGGQYIGSQSVRKVVEINDLLLGTLAGGAADCTYWYRVLTSECRLYELRN
KKKISLAAATKIMNNIIYSYKNSGLSMGMILAGGDMNQVSLYYLDSDGTRTMGKVFSVGS
GSIFAYGVLDSGYKWELTDEQAYELGRRSIYHATHRDAYSGGTVRVYHVKKDGWNLISEE
DCLDLHRRYEAEKKK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g11293.t4 CDD cd03761 proteasome_beta_type_5 51 238 5.33031E-118
9 g11293.t4 Gene3D G3DSA:3.60.20.10 Glutamine Phosphoribosylpyrophosphate 51 255 9.2E-79
2 g11293.t4 PANTHER PTHR11599:SF63 PROTEASOME SUBUNIT BETA 41 247 5.4E-84
3 g11293.t4 PANTHER PTHR11599 PROTEASOME SUBUNIT ALPHA/BETA 41 247 5.4E-84
5 g11293.t4 PRINTS PR00141 Proteasome component signature 58 73 3.7E-19
6 g11293.t4 PRINTS PR00141 Proteasome component signature 179 190 3.7E-19
4 g11293.t4 PRINTS PR00141 Proteasome component signature 190 201 3.7E-19
7 g11293.t4 PRINTS PR00141 Proteasome component signature 215 226 3.7E-19
1 g11293.t4 Pfam PF00227 Proteasome subunit 48 229 4.8E-44
11 g11293.t4 ProSitePatterns PS00854 Proteasome beta-type subunits signature. 54 101 -
12 g11293.t4 ProSiteProfiles PS51476 Proteasome beta-type subunit profile. 50 229 47.724
8 g11293.t4 SUPERFAMILY SSF56235 N-terminal nucleophile aminohydrolases (Ntn hydrolases) 38 249 5.29E-64

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

Pathway

  • This transcript belongs to the following pathways

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