Gene loci information

Transcript annotation

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

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.t10 TSS g2793.t10 20301584 20301584
chr_3 g2793 g2793.t10 isoform g2793.t10 20301681 20303092
chr_3 g2793 g2793.t10 exon g2793.t10.exon1 20301681 20302324
chr_3 g2793 g2793.t10 cds g2793.t10.CDS1 20301681 20302324
chr_3 g2793 g2793.t10 exon g2793.t10.exon2 20302472 20303092
chr_3 g2793 g2793.t10 cds g2793.t10.CDS2 20302472 20302520
chr_3 g2793 g2793.t10 TTS g2793.t10 20303186 20303186

Sequences

>g2793.t10 Gene=g2793 Length=1265
ATGGCAGGAACACTTGAAGATAAATCAATTTGGGAAGACGAAGAATTACTTGGTGAAGAA
GTCTTGCGTATGCCAACAGAAGATATTCAAAATCGAACTCGATTGATGGACAATGAAATT
AAAATAATGAAGTCTGAAGTGATGAGAATCAATCATGAGTTACAGGCACAAAATGAGAAA
ATTAAGGACAATACTGAGAAGATTAAAGTGAACAAGACACTTCCCTATTTGGTTTCAAAT
GTTATTGAATTGCTCGATATAGATCCACAAGAAGAAGAAGATGATGGTGCAGTAAATTTG
CTTGATTCACAACGCAAAGGAAAGTGTGCAGTTATCAAGACTTCTACTCGTCAAACCTAT
TTCTTACCAGTTATCGGTTTAGTTGATCCTGAAAAATTAAAACCAGGCGATTTAGTTGGT
GTTAACAAAGATTCGTATTTGATTTTGGAAACACTTCCAGCAGAATATGATGCTCGAGTT
AAAGCTATGGAGGTTGATGAACGCCCGACAGAGCAATATTCGGATATTGGCGGTTTAGAT
AAGCAAATTCAAGAGCTGATCGAGGCAGTAGTTTTGCCAATGACACATAAAGAAAAATTC
AAAAATCTCGGTATTCATCCACCAAAAGGTGTACTTTTATATGGTAATTTTATTTGTAGG
CATGTGCAGCTCAAACAAAGTCAACATTTTTAAAGCTTGCTGGTCCTCAGCTCGTACAGA
TGTTTATTGGTGATGGTGCAAAATTAGTGCGTGATGCATTTGCCCTTGCTAAAGAGAAAG
CTCCTGCAATCATTTTTATCGATGAATTAGATGCTATAGGAACTAAACGTTTTGACTCAG
AAAAGGCTGGTGATCGTGAAGTTCAGCGTACTATGTTAGAATTATTGAATCAATTGGATG
GCTTTAGTTCGCAAGCCGATATCAAAGTTATTGCTGCTACAAACCGTGTTGATATCTTAG
ATCCTGCTCTTCTTCGTTCAGGTCGTTTAGATCGTAAAATTGAATTCCCACATCCTAACG
AAGAAGCACGTGCACGTATTATGCAAATTCATTCAAGAAAAATGAACGTTAGTCCAGATG
TTAATTTTGAAGAATTAGCAAGAACGACAGACGATTTCAATGGAGCACAATGTAAAGCTG
TTTGTGTTGAAGCTGGTATGATTGCACTTCGTCGTTCAGCGAGCACTGTGACACATGAAG
ACTTTATGGATGCAATTATGGAAGTACAGGCTAAGAAGAAAGCCAATTTGAATTATTATG
CTTAA

>g2793.t10 Gene=g2793 Length=230
MAGTLEDKSIWEDEELLGEEVLRMPTEDIQNRTRLMDNEIKIMKSEVMRINHELQAQNEK
IKDNTEKIKVNKTLPYLVSNVIELLDIDPQEEEDDGAVNLLDSQRKGKCAVIKTSTRQTY
FLPVIGLVDPEKLKPGDLVGVNKDSYLILETLPAEYDARVKAMEVDERPTEQYSDIGGLD
KQIQELIEAVVLPMTHKEKFKNLGIHPPKGVLLYGNFICRHVQLKQSQHF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g2793.t10 Coils Coil Coil 40 71 -
6 g2793.t10 Gene3D G3DSA:2.40.50.140 - 39 162 6.9E-21
5 g2793.t10 Gene3D G3DSA:3.40.50.300 - 163 217 1.3E-11
2 g2793.t10 PANTHER PTHR23073 26S PROTEASOME REGULATORY SUBUNIT 12 216 2.3E-104
3 g2793.t10 PANTHER PTHR23073:SF90 26S PROTEASOME REGULATORY SUBUNIT 6A 12 216 2.3E-104
1 g2793.t10 Pfam PF16450 Proteasomal ATPase OB C-terminal domain 78 153 1.9E-17
4 g2793.t10 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 152 216 1.45E-8

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:0036402 proteasome-activating 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