Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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.t6 TTS g8196.t6 29032936 29032936
chr_2 g8196 g8196.t6 isoform g8196.t6 29033073 29033953
chr_2 g8196 g8196.t6 exon g8196.t6.exon1 29033073 29033329
chr_2 g8196 g8196.t6 cds g8196.t6.CDS1 29033073 29033329
chr_2 g8196 g8196.t6 exon g8196.t6.exon2 29033385 29033953
chr_2 g8196 g8196.t6 cds g8196.t6.CDS2 29033385 29033442
chr_2 g8196 g8196.t6 TSS g8196.t6 29034047 29034047

Sequences

>g8196.t6 Gene=g8196 Length=826
ATGTCTCGAGGCAGTAGCGCAGGATTTGATCGTCATATTACAATTTTTTCACCTGAAGGA
AGACTGTATCAAGTTGGTAAGTATTGACCGGAATAAACAAAAAAAATTTATGCAATCTCA
TTTTTATATTTATTTCTTTAAACTTGATATTTTACAGAATATGCTTTCAAAGCAATTAAT
CAAGAAGGAAATACTTCTGTGGCATTAAAAGGCAAGGATGTTGCAGTTGTTGCGACTCAA
AAAAAAGTTCCTGATAAGCTTATTGATCCCGAGACTGTTACACACTTATTTAGAATAACC
AAAAGAATTGGGTGTGTTATGACAGGAAAGCTGGCTGATAGTAAATCGCAAGTTCAGCGG
GCACAGTATGAAGCTGCTAACTGGAAATATAAATTTGGATATGAGATTCCAATCGATGTT
CTCTGTCGTCGTATCGCGGATATTGCTCAAGTTTATACACAAAATGCTGAAATGCGTCCT
TTGGGATGTTCCATGATCTTGATTGCTTTCGATGATGAGCTTGGACCATGTGTTTTTAAA
ACTGATCCTGCAGGCTATTACTGCGGTTAGTTTTAGAGCTGTCTCTGTTGGTGTAAAACA
AACTGAAGCCAACAGTTATTTGGAAAAGAAATTCAAGAAGAAAACCGATTATACTGAAAA
TGAAGCTATTCAATTAGCTATTTCTTGCTTATCTACTGTCTTAGCACTAGATTTCAAATC
GACTGAAATTGAAGTTGGAATTACAACACGAGATAATCCAGAGTTCAGACCTTTAACAAA
AGATGAAATTGAAAAGCATTTAAACGAAATTGCTGAGAAGGACTAA

>g8196.t6 Gene=g8196 Length=104
MMSLDHVFLKLILQAITAVSFRAVSVGVKQTEANSYLEKKFKKKTDYTENEAIQLAISCL
STVLALDFKSTEIEVGITTRDNPEFRPLTKDEIEKHLNEIAEKD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g8196.t6 Gene3D G3DSA:3.60.20.10 Glutamine Phosphoribosylpyrophosphate 15 104 4.0E-22
2 g8196.t6 PANTHER PTHR11599:SF113 PROTEASOME SUBUNIT ALPHA TYPE 20 101 3.2E-23
3 g8196.t6 PANTHER PTHR11599 PROTEASOME SUBUNIT ALPHA/BETA 20 101 3.2E-23
1 g8196.t6 Pfam PF00227 Proteasome subunit 20 77 2.4E-7
8 g8196.t6 Phobius SIGNAL_PEPTIDE Signal peptide region 1 23 -
9 g8196.t6 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 6 -
10 g8196.t6 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 7 18 -
11 g8196.t6 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 19 23 -
7 g8196.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 24 104 -
4 g8196.t6 SUPERFAMILY SSF56235 N-terminal nucleophile aminohydrolases (Ntn hydrolases) 19 102 1.53E-16
5 g8196.t6 SignalP_EUK SignalP-noTM SignalP-noTM 1 18 -

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: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. There were no conditions that were differentially expressed