Gene loci information

Transcript annotation

  • This transcript has been annotated as 26S proteasome regulatory subunit 10B.

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 g6491 g6491.t6 TTS g6491.t6 17249251 17249251
chr_2 g6491 g6491.t6 isoform g6491.t6 17249327 17250741
chr_2 g6491 g6491.t6 exon g6491.t6.exon1 17249327 17249429
chr_2 g6491 g6491.t6 cds g6491.t6.CDS1 17249327 17249429
chr_2 g6491 g6491.t6 exon g6491.t6.exon2 17249488 17250029
chr_2 g6491 g6491.t6 cds g6491.t6.CDS2 17249488 17249903
chr_2 g6491 g6491.t6 exon g6491.t6.exon3 17250202 17250402
chr_2 g6491 g6491.t6 exon g6491.t6.exon4 17250461 17250580
chr_2 g6491 g6491.t6 exon g6491.t6.exon5 17250645 17250741
chr_2 g6491 g6491.t6 TSS g6491.t6 17250826 17250826

Sequences

>g6491.t6 Gene=g6491 Length=1063
ATGACTACTGTAGCTGATCCAGTTCGCGAAAAGGCATTACAGGACTATCGAAAGAAATTA
TTGGAGCATAAGGAAGTCGAGTCTCGTTTGAAAGAAATTCGCGAGTCACTTAAAGATAGC
ACAAAGCAATTTGATAAGTCTGAAAATGATTTGAAAGCACTACAAAGTGTTGGTCAAATT
GTAGGTGAAGTTTTAAAGCAGCTTACCGAAGATAAATTCATTGTTAAAGCTACAAATGGT
CCACGTTATGTTGTTGGTTGTAGACGTCAATTGGACAAGTCAAAATTAAAATCAGGAACA
AGAGTTGCTTTAGATATGACAACACTCACTATTATGCGTTATTTACCACGAGAAGTTGAT
CCTCTCGTGTACAATATGTCGCATGAAGATCCAGGCGATGTCACTTATTCTGCTATTGCC
TGGTACAGGAAAAACTTTATTAGCTCGTGCTGTAGCATCACAATTGGATGCAAATTTCTT
AAAAGTCGTATCAAGTGCTATTGTCGACAAATATATTGGTGAATCAGCACGTTTGATTCG
TGAAATGTTTAATTATGCAAGAGATCATCAACCATGTATTATTTTTATGGATGAAATTGA
TGCTATTGGTGGAAGACGTTTTTCAGAAGGCACATCAGCAGATCGTGAAATTCAACGTAC
TTTGATGGAATTATTGAATCAAATGGACGGTTTTGATTCACTTGGTCAAGTTAAAATGAT
TATGGCCACAAATCGACCTGATACATTAGATCCCGCTCTTTTACGTCCTGGAAGATTGGA
TCGTAAAATCGAAATTCCGCTGCCAAATGAGCAAGCACGTCTTGAAATTCTCAAAATTCA
TGCTGGTCCAATAGCTAAGCATGGTGATATCGATTATGAGGCAGTTGTGAAACTTTCAGA
TTCATTCAATGGAGCTGATTTGAGAAATGTTTGTACTGAAGCTGGTTTATTTGCTATTCG
TGCTGAAAGAGAGTACGTAATACAAGAAGACTTTATGAAAGCTGTAAGAAAAGTATCTGA
TAATAAGAAATTGGAGAGCAAATTAGACTATAAGCCAGTTTAA

>g6491.t6 Gene=g6491 Length=172
MFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIM
ATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIHAGPIAKHGDIDYEAVVKLSDS
FNGADLRNVCTEAGLFAIRAEREYVIQEDFMKAVRKVSDNKKLESKLDYKPV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g6491.t6 CDD cd00009 AAA 1 86 1.47337E-10
7 g6491.t6 Gene3D G3DSA:3.40.50.300 - 1 86 4.5E-30
8 g6491.t6 Gene3D G3DSA:1.10.8.60 - 87 158 2.8E-21
3 g6491.t6 PANTHER PTHR23073 26S PROTEASOME REGULATORY SUBUNIT 1 172 9.5E-104
4 g6491.t6 PANTHER PTHR23073:SF76 26S PROTEASOME REGULATORY SUBUNIT 10B 1 172 9.5E-104
1 g6491.t6 Pfam PF00004 ATPase family associated with various cellular activities (AAA) 1 86 2.7E-22
2 g6491.t6 Pfam PF17862 AAA+ lid domain 108 151 9.8E-11
6 g6491.t6 ProSitePatterns PS00674 AAA-protein family signature. 56 74 -
5 g6491.t6 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 2 163 8.82E-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:0030433 ubiquitin-dependent ERAD pathway BP
GO:0016887 ATP hydrolysis activity MF
GO:0008540 proteasome regulatory particle, base subcomplex 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.

Raw TPM values