Gene loci information

Transcript annotation

  • This transcript has been annotated as 26S proteasome regulatory subunit 6A.

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_3 g2793 g2793.t17 TSS g2793.t17 20301584 20301584
chr_3 g2793 g2793.t17 isoform g2793.t17 20302304 20303092
chr_3 g2793 g2793.t17 exon g2793.t17.exon1 20302304 20302324
chr_3 g2793 g2793.t17 cds g2793.t17.CDS1 20302321 20302324
chr_3 g2793 g2793.t17 exon g2793.t17.exon2 20302398 20302423
chr_3 g2793 g2793.t17 cds g2793.t17.CDS2 20302398 20302423
chr_3 g2793 g2793.t17 exon g2793.t17.exon3 20302487 20303092
chr_3 g2793 g2793.t17 cds g2793.t17.CDS3 20302487 20303092
chr_3 g2793 g2793.t17 TTS g2793.t17 20303186 20303186

Sequences

>g2793.t17 Gene=g2793 Length=653
AAAAGGTGTACTTTTATATGGGTACTGGCAAAACTTTACTTGCAAGAGCATGTGCAGCTC
AAACAAAGTCAACATTTTTAAAGCTTGCTGGTCCTCAGCTCGTACAGATGTTTATTGGTG
ATGGTGCAAAATTAGTGCGTGATGCATTTGCCCTTGCTAAAGAGAAAGCTCCTGCAATCA
TTTTTATCGATGAATTAGATGCTATAGGAACTAAACGTTTTGACTCAGAAAAGGCTGGTG
ATCGTGAAGTTCAGCGTACTATGTTAGAATTATTGAATCAATTGGATGGCTTTAGTTCGC
AAGCCGATATCAAAGTTATTGCTGCTACAAACCGTGTTGATATCTTAGATCCTGCTCTTC
TTCGTTCAGGTCGTTTAGATCGTAAAATTGAATTCCCACATCCTAACGAAGAAGCACGTG
CACGTATTATGCAAATTCATTCAAGAAAAATGAACGTTAGTCCAGATGTTAATTTTGAAG
AATTAGCAAGAACGACAGACGATTTCAATGGAGCACAATGTAAAGCTGTTTGTGTTGAAG
CTGGTATGATTGCACTTCGTCGTTCAGCGAGCACTGTGACACATGAAGACTTTATGGATG
CAATTATGGAAGTACAGGCTAAGAAGAAAGCCAATTTGAATTATTATGCTTAA

>g2793.t17 Gene=g2793 Length=211
MGTGKTLLARACAAQTKSTFLKLAGPQLVQMFIGDGAKLVRDAFALAKEKAPAIIFIDEL
DAIGTKRFDSEKAGDREVQRTMLELLNQLDGFSSQADIKVIAATNRVDILDPALLRSGRL
DRKIEFPHPNEEARARIMQIHSRKMNVSPDVNFEELARTTDDFNGAQCKAVCVEAGMIAL
RRSASTVTHEDFMDAIMEVQAKKKANLNYYA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g2793.t17 CDD cd00009 AAA 2 127 1.18809E-17
8 g2793.t17 Gene3D G3DSA:3.40.50.300 - 1 128 9.0E-43
9 g2793.t17 Gene3D G3DSA:1.10.8.60 - 129 200 7.2E-24
3 g2793.t17 PANTHER PTHR23073 26S PROTEASOME REGULATORY SUBUNIT 2 209 4.2E-131
4 g2793.t17 PANTHER PTHR23073:SF90 26S PROTEASOME REGULATORY SUBUNIT 6A 2 209 4.2E-131
1 g2793.t17 Pfam PF00004 ATPase family associated with various cellular activities (AAA) 2 127 9.8E-37
2 g2793.t17 Pfam PF17862 AAA+ lid domain 150 194 6.3E-12
7 g2793.t17 ProSitePatterns PS00674 AAA-protein family signature. 98 116 -
6 g2793.t17 SMART SM00382 AAA_5 1 130 7.4E-10
5 g2793.t17 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 2 203 5.63E-50

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