Gene loci information

Transcript annotation

  • This transcript has been annotated as Proteasome subunit alpha 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 g8196 g8196.t7 TTS g8196.t7 29032936 29032936
chr_2 g8196 g8196.t7 isoform g8196.t7 29033073 29033953
chr_2 g8196 g8196.t7 exon g8196.t7.exon1 29033073 29033329
chr_2 g8196 g8196.t7 cds g8196.t7.CDS1 29033329 29033329
chr_2 g8196 g8196.t7 exon g8196.t7.exon2 29033385 29033796
chr_2 g8196 g8196.t7 cds g8196.t7.CDS2 29033385 29033796
chr_2 g8196 g8196.t7 exon g8196.t7.exon3 29033878 29033953
chr_2 g8196 g8196.t7 cds g8196.t7.CDS3 29033878 29033953
chr_2 g8196 g8196.t7 TSS g8196.t7 29034047 29034047

Sequences

>g8196.t7 Gene=g8196 Length=745
ATGTCTCGAGGCAGTAGCGCAGGATTTGATCGTCATATTACAATTTTTTCACCTGAAGGA
AGACTGTATCAAGTTGAATATGCTTTCAAAGCAATTAATCAAGAAGGAAATACTTCTGTG
GCATTAAAAGGCAAGGATGTTGCAGTTGTTGCGACTCAAAAAAAAGTTCCTGATAAGCTT
ATTGATCCCGAGACTGTTACACACTTATTTAGAATAACCAAAAGAATTGGGTGTGTTATG
ACAGGAAAGCTGGCTGATAGTAAATCGCAAGTTCAGCGGGCACAGTATGAAGCTGCTAAC
TGGAAATATAAATTTGGATATGAGATTCCAATCGATGTTCTCTGTCGTCGTATCGCGGAT
ATTGCTCAAGTTTATACACAAAATGCTGAAATGCGTCCTTTGGGATGTTCCATGATCTTG
ATTGCTTTCGATGATGAGCTTGGACCATGTGTTTTTAAAACTGATCCTGCAGGCTATTAC
TGCGGTTAGTTTTAGAGCTGTCTCTGTTGGTGTAAAACAAACTGAAGCCAACAGTTATTT
GGAAAAGAAATTCAAGAAGAAAACCGATTATACTGAAAATGAAGCTATTCAATTAGCTAT
TTCTTGCTTATCTACTGTCTTAGCACTAGATTTCAAATCGACTGAAATTGAAGTTGGAAT
TACAACACGAGATAATCCAGAGTTCAGACCTTTAACAAAAGATGAAATTGAAAAGCATTT
AAACGAAATTGCTGAGAAGGACTAA

>g8196.t7 Gene=g8196 Length=162
MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQEGNTSVALKGKDVAVVATQKKVPDKL
IDPETVTHLFRITKRIGCVMTGKLADSKSQVQRAQYEAANWKYKFGYEIPIDVLCRRIAD
IAQVYTQNAEMRPLGCSMILIAFDDELGPCVFKTDPAGYYCG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g8196.t7 CDD cd03754 proteasome_alpha_type_6 8 162 1.32897E-114
6 g8196.t7 Gene3D G3DSA:3.60.20.10 Glutamine Phosphoribosylpyrophosphate 1 162 1.8E-64
3 g8196.t7 PANTHER PTHR11599 PROTEASOME SUBUNIT ALPHA/BETA 1 162 1.9E-88
4 g8196.t7 PANTHER PTHR11599:SF110 PROTEASOME SUBUNIT ALPHA TYPE 1 162 1.9E-88
2 g8196.t7 Pfam PF10584 Proteasome subunit A N-terminal signature 9 31 1.9E-14
1 g8196.t7 Pfam PF00227 Proteasome subunit 35 161 6.3E-37
8 g8196.t7 ProSitePatterns PS00388 Proteasome alpha-type subunits signature. 9 31 -
10 g8196.t7 ProSiteProfiles PS51475 Proteasome alpha-type subunit profile. 24 162 53.767
9 g8196.t7 SMART SM00948 Proteasome_A_N_2 9 31 6.6E-11
5 g8196.t7 SUPERFAMILY SSF56235 N-terminal nucleophile aminohydrolases (Ntn hydrolases) 8 162 3.26E-59

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:0019773 proteasome core complex, alpha-subunit complex CC
GO:0051603 proteolysis involved in cellular protein catabolic process BP
GO:0006511 ubiquitin-dependent protein catabolic process BP
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