Gene loci information

Transcript annotation

  • This transcript has been annotated as 26S proteasome regulatory subunit 7.

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 g9569 g9569.t5 TTS g9569.t5 4074061 4074061
chr_1 g9569 g9569.t5 isoform g9569.t5 4074131 4074836
chr_1 g9569 g9569.t5 exon g9569.t5.exon1 4074131 4074766
chr_1 g9569 g9569.t5 cds g9569.t5.CDS1 4074131 4074667
chr_1 g9569 g9569.t5 exon g9569.t5.exon2 4074828 4074836
chr_1 g9569 g9569.t5 TSS g9569.t5 4075709 4075709

Sequences

>g9569.t5 Gene=g9569 Length=645
ACTGGCAAGACACTATGTGCAAGAGCAGTTGCAAATCGTACTGATGCTTGTTTTATTCGT
GTAATTGGATCTGAGTTGGTTCAGAAATATGTCGGTGAAGGAGCGAGAATGGTTCGCGAA
TTATTTGAAATGGCACGCAGTAAAAAAGCTTGTCTCATCTTTTTCGATGAAATTGATGCT
ATTGGTGGTGCACGTTTTGACGATGGTGCAGGAGGAGATAATGAAGTTCAAAGAACTATG
TTGGAACTTATTAATCAACTTGATGGTTTTGATCCTCGTGGTAATATCAAAGTTTTGATG
GCTACAAATCGTCCTGATACTTTAGATCCTGCATTAATGCGTCCTGGTCGTCTCGATAGA
AAAGTTGAATTTGGCTTACCTGACCTCGAAGGAAGAGCTCACATTTTTAAAATTCATGCT
CGTTCAATGTCTGTTGAGCGTGATATTCGCTTTGAATTGCTTGCTCGATTATGTCCTAAT
TCAACTGGTGCTGAAATTCGATCAGTTTGCACAGAAGCTGGCATGTTTGCTATTCGTGCA
CGACGTAAAGTTGCAACAGAGAAAGATTTCCTTGAAGCTGTGAACAAAGTCATCAAGAGC
TACGCCAAATTCTCAGCTACTCCACGTTACATGACTTACAATTAA

>g9569.t5 Gene=g9569 Length=178
MVRELFEMARSKKACLIFFDEIDAIGGARFDDGAGGDNEVQRTMLELINQLDGFDPRGNI
KVLMATNRPDTLDPALMRPGRLDRKVEFGLPDLEGRAHIFKIHARSMSVERDIRFELLAR
LCPNSTGAEIRSVCTEAGMFAIRARRKVATEKDFLEAVNKVIKSYAKFSATPRYMTYN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g9569.t5 CDD cd00009 AAA 2 90 3.32759E-11
7 g9569.t5 Gene3D G3DSA:3.40.50.300 - 1 89 9.0E-28
8 g9569.t5 Gene3D G3DSA:1.10.8.60 - 91 163 1.7E-23
3 g9569.t5 PANTHER PTHR23073 26S PROTEASOME REGULATORY SUBUNIT 1 176 2.1E-107
4 g9569.t5 PANTHER PTHR23073:SF13 26S PROTEASOME REGULATORY SUBUNIT 7 1 176 2.1E-107
1 g9569.t5 Pfam PF00004 ATPase family associated with various cellular activities (AAA) 2 89 1.8E-20
2 g9569.t5 Pfam PF17862 AAA+ lid domain 112 156 2.9E-9
6 g9569.t5 ProSitePatterns PS00674 AAA-protein family signature. 60 78 -
5 g9569.t5 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 2 166 9.77E-38

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:0005524 ATP binding MF
GO:0036402 proteasome-activating activity MF
GO:0016887 ATP hydrolysis activity MF

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.

Raw TPM values