Gene loci information

Transcript annotation

  • This transcript has been annotated as Proteasome subunit alpha type-1.

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 g13361 g13361.t9 isoform g13361.t9 29514259 29515748
chr_1 g13361 g13361.t9 exon g13361.t9.exon1 29514259 29514477
chr_1 g13361 g13361.t9 exon g13361.t9.exon2 29514774 29515271
chr_1 g13361 g13361.t9 cds g13361.t9.CDS1 29514998 29515271
chr_1 g13361 g13361.t9 exon g13361.t9.exon3 29515328 29515578
chr_1 g13361 g13361.t9 cds g13361.t9.CDS2 29515328 29515578
chr_1 g13361 g13361.t9 exon g13361.t9.exon4 29515746 29515748
chr_1 g13361 g13361.t9 cds g13361.t9.CDS3 29515746 29515748
chr_1 g13361 g13361.t9 TSS g13361.t9 29515842 29515842
chr_1 g13361 g13361.t9 TTS g13361.t9 NA NA

Sequences

>g13361.t9 Gene=g13361 Length=971
ATGTTTCGCAATCAATATGATAGTGATGTTACTGTTTGGAGTCCACAAGGACGAATTCAT
CAAGTTGAATATGCAATGGAAGCTGTAAAATTAGGATCAGCTACTGTCGGCTTAAAGTCA
AAAGATTATGCAGTTTTGATTGCATTGAAAAGAGCAACATCTGAATTGTCAGCTCATCAA
CAAAAAATTCTTCGTATTGATGATCATATTGGCATTTCGATGGCTGGAATTACTGCTGAT
GCTCGTGTTCTATGTCGCTATATGCGTCAGGAATGCATAAATCATAAGTATTCTTATGGT
AGAAATCATCCAGTTGGTCGCTTGATTAATTTATTAGGACTTAAGATGCAGGTGTGCACT
CAGCGTTATGACCGTCGTCCTTATGGTGTTGGTTTGCTTGTTGCTGGTTACGATGATCAA
GGACCACATATTATCAGACTTGTCCAAGTGCAAACTTTTACGATTGCAAAGCAATGGCAA
TTGGTGCACGCTCTCAAAGTGCAAGAACTTATCTCGAGAAGCATTTGAATGAATTCAAAG
ATTGCAATCTTTCTGATTTGATTAATCATGGTGTTCGTGCTTTTGCGGGTACATTACCAA
ACGAAACTAAATTGAACAATAAGAACTTGTCAATTTGTGTTGTTGGAAAGAATTATAAAT
TCCATTGCTTAGACGAAACCGAGTTGGAAAAATATATTACTGCTGAAATCGTTGGAACTC
AACCTACTTCTTCTGCTAGTGATTCTTCAGAGCATCGCAGTTTATTAAGTGATGATGAAG
AAAGTTTCGAAAAAAGTGAAGAAGATGTTGATATGCAAGATGTCTGAAATAAAGTATGAA
ATGAGATGATATCTTTTCATTTACTTCAAAAGTTATTTTTTTTATTTAAAAATGGGGAGA
TTACTTTTCATATGTATTTGTTTCAGTTTTTAACGAAAAACAACTTTATTGATTCTACTC
CGCAATTCATT

>g13361.t9 Gene=g13361 Length=175
MFRNQYDSDVTVWSPQGRIHQVEYAMEAVKLGSATVGLKSKDYAVLIALKRATSELSAHQ
QKILRIDDHIGISMAGITADARVLCRYMRQECINHKYSYGRNHPVGRLINLLGLKMQVCT
QRYDRRPYGVGLLVAGYDDQGPHIIRLVQVQTFTIAKQWQLVHALKVQELISRSI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g13361.t9 Gene3D G3DSA:3.60.20.10 Glutamine Phosphoribosylpyrophosphate 2 155 2.3E-59
3 g13361.t9 PANTHER PTHR11599:SF12 PROTEASOME SUBUNIT ALPHA TYPE-1 1 146 1.3E-74
4 g13361.t9 PANTHER PTHR11599 PROTEASOME SUBUNIT ALPHA/BETA 1 146 1.3E-74
2 g13361.t9 Pfam PF10584 Proteasome subunit A N-terminal signature 6 28 2.9E-13
1 g13361.t9 Pfam PF00227 Proteasome subunit 29 146 2.1E-38
7 g13361.t9 ProSitePatterns PS00388 Proteasome alpha-type subunits signature. 6 28 -
9 g13361.t9 ProSiteProfiles PS51475 Proteasome alpha-type subunit profile. 21 175 46.313
6 g13361.t9 SMART SM00948 Proteasome_A_N_2 6 28 6.7E-10
5 g13361.t9 SUPERFAMILY SSF56235 N-terminal nucleophile aminohydrolases (Ntn hydrolases) 4 145 2.04E-54

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