Gene loci information

Transcript annotation

  • This transcript has been annotated as Proteasome subunit beta type-6.

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_2 g7161 g7161.t1 TSS g7161.t1 21627645 21627645
chr_2 g7161 g7161.t1 isoform g7161.t1 21627737 21628517
chr_2 g7161 g7161.t1 exon g7161.t1.exon1 21627737 21627787
chr_2 g7161 g7161.t1 cds g7161.t1.CDS1 21627737 21627787
chr_2 g7161 g7161.t1 exon g7161.t1.exon2 21627891 21628517
chr_2 g7161 g7161.t1 cds g7161.t1.CDS2 21627891 21628517
chr_2 g7161 g7161.t1 TTS g7161.t1 21628604 21628604

Sequences

>g7161.t1 Gene=g7161 Length=678
ATGGATGCTCATTTAGGATGCGATTTCCTCGATCATCCAGTCTCAACTGGAACAACAATT
ATGGCTGTTGAGTTCAATGGAGGAGTTATAATTGGCGCAGATTCACGAACATCGACTGGT
AGTTATGTAGCAAATCGTGTGACTGACAAATTGACACGAATTACTGATAAAATTTATTGT
TGTCGAAGTGGATCAGCTGCTGATACTCAGGCTATTGCTGATATAGTCTCTTATTCAACA
TATTTTTTTGAGAATCAAAATAATCGAGATGCACTCGTATCAGAAGTTGCAGCAGAATTC
CGTAAATTTTGCTATAACTATCGTGATACAATCACTGCTGGAATAATTGTTGCCGGATAT
GATGATGTAAATGGTGGTCAAGTCTATTCAGTTCCATTAGGTGGCATGTTAATCAGACAA
AGTTGTACTATTGGAGGATCTGGAAGTTCATTCATTTATGGTTTTGTTCGCGAGAATTAT
AAAGAGCAAATGGAGAAGGAAGAATGTGTTGAATTTGTAAAGAAGGCTGTATTTCATGCA
ATGTTTCATGATGGCAGTTCAGGTGGTGTCTGTCGTGTTGGAATAATTACAAAAGATGGT
ATTGAAAGACGTGTATTTTTTGCTCCATCAGTAGATGAAAAACCAGCAATGACACCCGCA
AGTGTGACTGTACGCTAA

>g7161.t1 Gene=g7161 Length=225
MDAHLGCDFLDHPVSTGTTIMAVEFNGGVIIGADSRTSTGSYVANRVTDKLTRITDKIYC
CRSGSAADTQAIADIVSYSTYFFENQNNRDALVSEVAAEFRKFCYNYRDTITAGIIVAGY
DDVNGGQVYSVPLGGMLIRQSCTIGGSGSSFIYGFVRENYKEQMEKEECVEFVKKAVFHA
MFHDGSSGGVCRVGIITKDGIERRVFFAPSVDEKPAMTPASVTVR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g7161.t1 CDD cd03762 proteasome_beta_type_6 18 205 3.0558E-113
9 g7161.t1 Gene3D G3DSA:3.60.20.10 Glutamine Phosphoribosylpyrophosphate 18 221 1.3E-76
2 g7161.t1 PANTHER PTHR11599:SF4 PROTEASOME SUBUNIT BETA 12 206 7.3E-82
3 g7161.t1 PANTHER PTHR11599 PROTEASOME SUBUNIT ALPHA/BETA 12 206 7.3E-82
4 g7161.t1 PRINTS PR00141 Proteasome component signature 25 40 2.7E-16
6 g7161.t1 PRINTS PR00141 Proteasome component signature 146 157 2.7E-16
5 g7161.t1 PRINTS PR00141 Proteasome component signature 157 168 2.7E-16
7 g7161.t1 PRINTS PR00141 Proteasome component signature 182 193 2.7E-16
1 g7161.t1 Pfam PF00227 Proteasome subunit 14 196 7.2E-43
11 g7161.t1 ProSitePatterns PS00854 Proteasome beta-type subunits signature. 21 68 -
12 g7161.t1 ProSiteProfiles PS51476 Proteasome beta-type subunit profile. 17 196 41.058
8 g7161.t1 SUPERFAMILY SSF56235 N-terminal nucleophile aminohydrolases (Ntn hydrolases) 11 203 1.67E-58

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: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