Gene loci information

Transcript annotation

  • This transcript has been annotated as 26S proteasome non-ATPase regulatory subunit 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 g10382 g10382.t2 isoform g10382.t2 9347531 9348435
chr_1 g10382 g10382.t2 exon g10382.t2.exon1 9347531 9348435
chr_1 g10382 g10382.t2 cds g10382.t2.CDS1 9347545 9348435
chr_1 g10382 g10382.t2 TTS g10382.t2 9348528 9348528
chr_1 g10382 g10382.t2 TSS g10382.t2 NA NA

Sequences

>g10382.t2 Gene=g10382 Length=905
AGATTGCATCTGCCATGATTCTCATTCAACATACGGATCAAACTTGTCCAAAAGTGACAT
TCTTCCGACAACTTTATTCGCAAGTTATTAGCAGCAAGCATGAGGACACAATGGCTAAAT
TCGGTGCTATTTTAGCACAAGGAATTATTGATGGTGGTGGTCGTAATGCAACATTGGGCT
TGCAATCACGTACTGGTCATACTAATTTGCAAGCTGTCGTCGGTACTTTAGTTTTCACTC
AATATTGGTACTGGTTTCCGTTAGCTCATTGTTTATCGCTTGCATTCACACCAACCTGCA
TCATTGCACTGAATTCAGACTTGAAAATGCCAAAAATCGAATTTAAATCTTCTGCACGTC
CTTCTTTGTATGCTTATCCAGCACCATTGGAAGAAAAGAAGCGAGAAGAACGTGAAAAAG
TCACAACTGCTATCTTATCAATTGCTGCGCGTCAAAAACGTCGTGAAGGTGAAAAAAAGA
AAGACGATGGAAAAATGGAAGTTGATGAGGAAGTAAAAGATGATAAGGAAGATGCTAAAA
AATCAGCTTCACCATCTGACAAGAAAGACAAGAAGTCTAAAGATGAAAAGAGTGAAAAGA
CAGACGATGGAAATTCTACTGCTGTGACTGCTACGAAGGAACGAAAAGAACCAGAACCTA
CATTTGAAATGCTCAGCAATCCAGCACGTGTTTTACGTCAACAATTGAAAGTGATTAGTA
TTGCAGAAGGAACATCATATCAACCAGTAAAAGATGTCACAATCGGAGGAATAATAATGA
TGCAGTACACATCACAAAATGAACAAGTATTGGTAGAACCCGTTGCAGCATATGGACCAA
AATCTACTGATGATAATGCAAAGGAACCAGATGCACCTGAACCATTTGAGTATATTGAAG
ATTAA

>g10382.t2 Gene=g10382 Length=296
MILIQHTDQTCPKVTFFRQLYSQVISSKHEDTMAKFGAILAQGIIDGGGRNATLGLQSRT
GHTNLQAVVGTLVFTQYWYWFPLAHCLSLAFTPTCIIALNSDLKMPKIEFKSSARPSLYA
YPAPLEEKKREEREKVTTAILSIAARQKRREGEKKKDDGKMEVDEEVKDDKEDAKKSASP
SDKKDKKSKDEKSEKTDDGNSTAVTATKERKEPEPTFEMLSNPARVLRQQLKVISIAEGT
SYQPVKDVTIGGIIMMQYTSQNEQVLVEPVAAYGPKSTDDNAKEPDAPEPFEYIED

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g10382.t2 Gene3D G3DSA:1.25.10.10 - 1 94 2.7E-35
5 g10382.t2 MobiDBLite mobidb-lite consensus disorder prediction 145 218 -
6 g10382.t2 MobiDBLite mobidb-lite consensus disorder prediction 146 216 -
4 g10382.t2 MobiDBLite mobidb-lite consensus disorder prediction 275 296 -
2 g10382.t2 PANTHER PTHR10943:SF2 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 1 1 264 7.9E-92
3 g10382.t2 PANTHER PTHR10943 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 1 264 7.9E-92
1 g10382.t2 Pfam PF18004 26S proteasome regulatory subunit RPN2 C-terminal domain 94 264 1.6E-49
9 g10382.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 76 -
10 g10382.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 77 99 -
8 g10382.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 100 296 -

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:0030234 enzyme regulator 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