Gene loci information

Transcript annotation

  • This transcript has been annotated as Proteasome subunit alpha type-5.

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 g5573 g5573.t7 TTS g5573.t7 10347276 10347276
chr_2 g5573 g5573.t7 isoform g5573.t7 10347358 10348309
chr_2 g5573 g5573.t7 exon g5573.t7.exon1 10347358 10347947
chr_2 g5573 g5573.t7 cds g5573.t7.CDS1 10347358 10347947
chr_2 g5573 g5573.t7 exon g5573.t7.exon2 10348011 10348142
chr_2 g5573 g5573.t7 cds g5573.t7.CDS2 10348011 10348142
chr_2 g5573 g5573.t7 exon g5573.t7.exon3 10348307 10348309
chr_2 g5573 g5573.t7 cds g5573.t7.CDS3 10348307 10348307
chr_2 g5573 g5573.t7 TSS g5573.t7 10348395 10348395

Sequences

>g5573.t7 Gene=g5573 Length=725
AAATGTTCCTTACACGTTCAGAATATGATAGAGGTGTCAACACTTACTCACCAGAAGGAA
GATTACTACAAGTTGAATATGCTATTGAAGCCATTAAATTGGGTAGCACTGCTATCGGTA
TCAGTACATCAGAGGTTATGGTTGTTGAAAAGCGTATTACATCACCATTGATGGAACCTT
CTAAAGTTGAGAAAATATTTGAAGTAGATCGTCATATTGGCTGTGCTACATCTGGATTGA
TGGCTGATTCAAGAACTCTTTTGGAACGCGCAAGAGTTGAAGCTCAAAATCATTGGTTTG
TTTATAATGAACCAATGTATGTTGAGTCATGTGCTAGAGCAGTTTCAAATTTAGCTATTC
AATTTGGAGATTCATCAGATGACAGCGGTTCGGCAATGAGTCGACCTTTCGGTGTGGCAA
TTTTATTTGCTGGAGTTGATAATAATGTTCCACAATTATATCATATGGATCCATCTGGCA
CTTTGTTGAGATATGATGCGAAAGCAATTGGATCGGGTAGTGAAGGAGCTCAGCAGCATT
TGCAGGAAATTTACTCAAGCTCATTAACATTGAAAGAGGCCGTCTCAAAAGCACTAGAAA
CTCTTAAGCAAGTAATGGAAGAAAAATTGAGTTCAACAAATGTAGAAGTTATGACAATGA
CTCCAAAAGATCTCTTCTACATGTATACAAAAGAAGAGGTTGAAGCTGTAATTGCTGATT
TATAA

>g5573.t7 Gene=g5573 Length=240
MFLTRSEYDRGVNTYSPEGRLLQVEYAIEAIKLGSTAIGISTSEVMVVEKRITSPLMEPS
KVEKIFEVDRHIGCATSGLMADSRTLLERARVEAQNHWFVYNEPMYVESCARAVSNLAIQ
FGDSSDDSGSAMSRPFGVAILFAGVDNNVPQLYHMDPSGTLLRYDAKAIGSGSEGAQQHL
QEIYSSSLTLKEAVSKALETLKQVMEEKLSSTNVEVMTMTPKDLFYMYTKEEVEAVIADL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g5573.t7 CDD cd03753 proteasome_alpha_type_5 8 219 4.72633E-137
6 g5573.t7 Gene3D G3DSA:3.60.20.10 Glutamine Phosphoribosylpyrophosphate 1 240 1.6E-82
3 g5573.t7 PANTHER PTHR11599:SF14 PROTEASOME SUBUNIT ALPHA TYPE-5 1 238 6.3E-100
4 g5573.t7 PANTHER PTHR11599 PROTEASOME SUBUNIT ALPHA/BETA 1 238 6.3E-100
2 g5573.t7 Pfam PF10584 Proteasome subunit A N-terminal signature 8 30 1.7E-12
1 g5573.t7 Pfam PF00227 Proteasome subunit 31 218 4.1E-49
8 g5573.t7 ProSitePatterns PS00388 Proteasome alpha-type subunits signature. 8 30 -
10 g5573.t7 ProSiteProfiles PS51475 Proteasome alpha-type subunit profile. 23 237 67.713
9 g5573.t7 SMART SM00948 Proteasome_A_N_2 8 30 1.5E-9
5 g5573.t7 SUPERFAMILY SSF56235 N-terminal nucleophile aminohydrolases (Ntn hydrolases) 7 237 1.22E-70

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5573/g5573.t7; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5573.t7.fa.iupred3.txt does not exist

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:0043161 proteasome-mediated ubiquitin-dependent 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. There were no conditions that were differentially expressed