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.t3 TSS g7161.t3 21627645 21627645
chr_2 g7161 g7161.t3 isoform g7161.t3 21627737 21628517
chr_2 g7161 g7161.t3 exon g7161.t3.exon1 21627737 21627791
chr_2 g7161 g7161.t3 exon g7161.t3.exon2 21627891 21628517
chr_2 g7161 g7161.t3 cds g7161.t3.CDS1 21627900 21628517
chr_2 g7161 g7161.t3 TTS g7161.t3 21628604 21628604

Sequences

>g7161.t3 Gene=g7161 Length=682
ATGGATGCTCATTTAGGATGCGATTTCCTCGATCATCCAGTCTCAACTGGAGTAAACAAC
AATTATGGCTGTTGAGTTCAATGGAGGAGTTATAATTGGCGCAGATTCACGAACATCGAC
TGGTAGTTATGTAGCAAATCGTGTGACTGACAAATTGACACGAATTACTGATAAAATTTA
TTGTTGTCGAAGTGGATCAGCTGCTGATACTCAGGCTATTGCTGATATAGTCTCTTATTC
AACATATTTTTTTGAGAATCAAAATAATCGAGATGCACTCGTATCAGAAGTTGCAGCAGA
ATTCCGTAAATTTTGCTATAACTATCGTGATACAATCACTGCTGGAATAATTGTTGCCGG
ATATGATGATGTAAATGGTGGTCAAGTCTATTCAGTTCCATTAGGTGGCATGTTAATCAG
ACAAAGTTGTACTATTGGAGGATCTGGAAGTTCATTCATTTATGGTTTTGTTCGCGAGAA
TTATAAAGAGCAAATGGAGAAGGAAGAATGTGTTGAATTTGTAAAGAAGGCTGTATTTCA
TGCAATGTTTCATGATGGCAGTTCAGGTGGTGTCTGTCGTGTTGGAATAATTACAAAAGA
TGGTATTGAAAGACGTGTATTTTTTGCTCCATCAGTAGATGAAAAACCAGCAATGACACC
CGCAAGTGTGACTGTACGCTAA

>g7161.t3 Gene=g7161 Length=205
MAVEFNGGVIIGADSRTSTGSYVANRVTDKLTRITDKIYCCRSGSAADTQAIADIVSYST
YFFENQNNRDALVSEVAAEFRKFCYNYRDTITAGIIVAGYDDVNGGQVYSVPLGGMLIRQ
SCTIGGSGSSFIYGFVRENYKEQMEKEECVEFVKKAVFHAMFHDGSSGGVCRVGIITKDG
IERRVFFAPSVDEKPAMTPASVTVR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g7161.t3 CDD cd03762 proteasome_beta_type_6 1 185 6.79602E-110
9 g7161.t3 Gene3D G3DSA:3.60.20.10 Glutamine Phosphoribosylpyrophosphate 1 201 4.3E-74
2 g7161.t3 PANTHER PTHR11599:SF4 PROTEASOME SUBUNIT BETA 1 186 8.3E-77
3 g7161.t3 PANTHER PTHR11599 PROTEASOME SUBUNIT ALPHA/BETA 1 186 8.3E-77
4 g7161.t3 PRINTS PR00141 Proteasome component signature 5 20 2.0E-16
7 g7161.t3 PRINTS PR00141 Proteasome component signature 126 137 2.0E-16
5 g7161.t3 PRINTS PR00141 Proteasome component signature 137 148 2.0E-16
6 g7161.t3 PRINTS PR00141 Proteasome component signature 162 173 2.0E-16
1 g7161.t3 Pfam PF00227 Proteasome subunit 2 176 2.3E-39
11 g7161.t3 ProSitePatterns PS00854 Proteasome beta-type subunits signature. 1 48 -
12 g7161.t3 ProSiteProfiles PS51476 Proteasome beta-type subunit profile. 1 176 38.278
8 g7161.t3 SUPERFAMILY SSF56235 N-terminal nucleophile aminohydrolases (Ntn hydrolases) 1 183 2.24E-53

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. There were no conditions that were differentially expressed