Gene loci information

Transcript annotation

  • This transcript has been annotated as Proteasome subunit alpha type-7-1.

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 g13240 g13240.t5 TTS g13240.t5 28735788 28735788
chr_1 g13240 g13240.t5 isoform g13240.t5 28735881 28736868
chr_1 g13240 g13240.t5 exon g13240.t5.exon1 28735881 28736492
chr_1 g13240 g13240.t5 cds g13240.t5.CDS1 28735881 28736492
chr_1 g13240 g13240.t5 exon g13240.t5.exon2 28736788 28736868
chr_1 g13240 g13240.t5 cds g13240.t5.CDS2 28736788 28736868
chr_1 g13240 g13240.t5 TSS g13240.t5 28736963 28736963

Sequences

>g13240.t5 Gene=g13240 Length=693
ATGTCTGGTGGATATGATAGAGCTGTTACTGTTTTCTCGCCTGATGGTCATTTATTGCAA
GTTGAATATGCACAAGAAGCTAAGAAGTCAGTGGCTAAACTTCAAGAAGACAGAACCGTT
CGAAAAATCTGCCTTTTAGATAATCATGTTGTGATGGCTTTTGCAGGATTGACTGCGGAC
GCTCGTATTCTCATTAATCGAGCTCAAATTGAATGTCAATCTCACAAGTTGAATGTAGAA
GATCCAGTAACAATTGAATACATTACTCGTTATATTGCTCAATTGAAGCAAAAATACACT
CAATCAAATGGACGTCGTCCTTTTGGTCTATCATGCTTAATTGGTGGATTTGATATGGAT
GGAACACCTCGTCTTTTTCAAACTGATCCATCTGGTATTTATTATGAATGGAAGGCAAAT
GCAACAGGCAAATCAGCAAAAACTGTTCGTGAGTTCCTTGAAAAATATTACACTCCAGAA
TTGGTTGAAACAGAGGAAGGTGCAGTGAAATTGGCAATTAAAGCTCTCCTTGAAGTCGTT
CAATCGGGTCAAAAAAATTTAGAGGTAGCCATCATGCGAAAGGATAAACCAATGCAAATG
CTTGATGCTGAAAGCATTGAAAAATATGTTAGTGTGATCGAAGAGGAGAATGCAAAAGAA
AAGGCTGCCAAGCAGGGAAGTCAACAACAATAA

>g13240.t5 Gene=g13240 Length=230
MSGGYDRAVTVFSPDGHLLQVEYAQEAKKSVAKLQEDRTVRKICLLDNHVVMAFAGLTAD
ARILINRAQIECQSHKLNVEDPVTIEYITRYIAQLKQKYTQSNGRRPFGLSCLIGGFDMD
GTPRLFQTDPSGIYYEWKANATGKSAKTVREFLEKYYTPELVETEEGAVKLAIKALLEVV
QSGQKNLEVAIMRKDKPMQMLDAESIEKYVSVIEEENAKEKAAKQGSQQQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g13240.t5 CDD cd03755 proteasome_alpha_type_7 5 192 1.16826E-130
8 g13240.t5 Gene3D G3DSA:3.60.20.10 Glutamine Phosphoribosylpyrophosphate 4 229 2.0E-73
4 g13240.t5 PANTHER PTHR11599:SF144 PROTEASOME SUBUNIT ALPHA-TYPE 8 1 29 5.3E-105
6 g13240.t5 PANTHER PTHR11599 PROTEASOME SUBUNIT ALPHA/BETA 1 29 5.3E-105
3 g13240.t5 PANTHER PTHR11599:SF144 PROTEASOME SUBUNIT ALPHA-TYPE 8 28 224 5.3E-105
5 g13240.t5 PANTHER PTHR11599 PROTEASOME SUBUNIT ALPHA/BETA 28 224 5.3E-105
2 g13240.t5 Pfam PF10584 Proteasome subunit A N-terminal signature 5 27 1.2E-13
1 g13240.t5 Pfam PF00227 Proteasome subunit 28 191 7.6E-52
10 g13240.t5 ProSitePatterns PS00388 Proteasome alpha-type subunits signature. 5 27 -
12 g13240.t5 ProSiteProfiles PS51475 Proteasome alpha-type subunit profile. 28 210 62.324
11 g13240.t5 SMART SM00948 Proteasome_A_N_2 5 27 2.3E-10
7 g13240.t5 SUPERFAMILY SSF56235 N-terminal nucleophile aminohydrolases (Ntn hydrolases) 4 216 5.7E-66

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

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