Gene loci information

Transcript annotation

  • This transcript has been annotated as 26S proteasome non-ATPase regulatory subunit 11.

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 g446 g446.t5 TSS g446.t5 3376534 3376534
chr_3 g446 g446.t5 isoform g446.t5 3376641 3378106
chr_3 g446 g446.t5 exon g446.t5.exon1 3376641 3377195
chr_3 g446 g446.t5 cds g446.t5.CDS1 3376641 3377195
chr_3 g446 g446.t5 exon g446.t5.exon2 3377336 3377609
chr_3 g446 g446.t5 cds g446.t5.CDS2 3377336 3377609
chr_3 g446 g446.t5 exon g446.t5.exon3 3377663 3378106
chr_3 g446 g446.t5 cds g446.t5.CDS3 3377663 3377691
chr_3 g446 g446.t5 TTS g446.t5 3378528 3378528

Sequences

>g446.t5 Gene=g446 Length=1273
ATGGCAGGAGCTACAAGTTTTGAGAGAACTCAGTCTATCACTTCAATTGGACGCGCAGAG
GAGAGTGAAAAGCTTTTAAATAAAATTCTCAAGGATCTCGAAATGAACGAGAATGATGAA
GAGCAAATTCGCATTAAAGAGGCCGCAATCTTAGAATTGGGCCAGTTTTACAAGACACAA
GGAAAGGCTAAGGAGCTTGCAGATCTAATTTCTAAATCCCGTCCGTTCCTTAATCTCATT
TCTAAAGCAAAGGCAGCAAAGTTAGTGCGTAGCCTTGTCGATCTATTTTTGGATCTTGAA
GCTGGAACTGGCATAGAAGTTCAATTGTGCAAAGACTGCATAGAATGGGCAAAACAAGAA
AAGAGAACTTTCTTACGTCAATCTTTAGAAGCAAGATTGATTGCTTTGTATTTCGACACA
AAGATGTACTCTGAAGCACTAACTCTCGGATCACAGCTCCTTCGTGAGTTAAAGAAAATG
GATGATAAGAACTTGCTAGTTGAAGTGCAGTTATTAGAAAGTAAAACCTATCATGCACTG
AGCAATTTATCCAAGGCTCGTGCTGCACTTACATCTGCAAGAACAACAGCAAATTCAATT
TATTGTCCTCCAAAAGTTCAAGCTGCTCTCGATTTGCAATCTGGTATTCTTCATGCTGCA
GATGAACGTGATTTTAAGACAGCCTTTTCTTATTTCTATGAAGCGTTTGAAGGATATGAC
AGTGTTGAAAATGTTAAAGCATTAACTGCACTCAAATACATGTTATTGTGCAAAATTATG
CTTGGTCAAAGTGATGATGTTAATCAAATTGTTAGTGGAAAATTGGTAAGCAATTTCATA
TTCTGGAAAAGACATTGACGCAATGAAAGCTGTTGCTCAAGCATCACACAAGCGTTCACT
TGCAGACTTTCAACAAGCACTAAAGGAATTCAAATCACAACTCGAAGACGATGTAATAGT
TCGTGCACATTTAGATTCATTATATGATACAATGTTAGAGCAAAATCTTTGTCGCATCAT
TGAACCTTATTCTCGTGTTCAAGTGTCGTTTATTGCAAATTCTATCAAATTACCAATTCA
GCAAGTTGAAAAAAAATTGTCTCAAATGATTTTGGATAAAAAGTTTAGTGGTATCCTTGA
TCAAGGAGATGGTGTATTAATTGTGTTTGAAGAAACACCAATTGATAAGACTTATGAAAC
TGCACTAGAGACAATTCATCATATGGGGAAAGTTGTAGATACATTGTATCAAAAGGCTAA
GAAATTATCATAA

>g446.t5 Gene=g446 Length=285
MAGATSFERTQSITSIGRAEESEKLLNKILKDLEMNENDEEQIRIKEAAILELGQFYKTQ
GKAKELADLISKSRPFLNLISKAKAAKLVRSLVDLFLDLEAGTGIEVQLCKDCIEWAKQE
KRTFLRQSLEARLIALYFDTKMYSEALTLGSQLLRELKKMDDKNLLVEVQLLESKTYHAL
SNLSKARAALTSARTTANSIYCPPKVQAALDLQSGILHAADERDFKTAFSYFYEAFEGYD
SVENVKALTALKYMLLCKIMLGQSDDVNQIVSGKLVSNFIFWKRH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g446.t5 Coils Coil Coil 19 39 -
4 g446.t5 Gene3D G3DSA:1.25.40.570 - 29 280 2.0E-110
2 g446.t5 PANTHER PTHR10678:SF6 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 11A 4 277 2.1E-126
3 g446.t5 PANTHER PTHR10678 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 11/COP9 SIGNALOSOME COMPLEX SUBUNIT 2 4 277 2.1E-126
1 g446.t5 Pfam PF18055 26S proteasome regulatory subunit RPN6 N-terminal domain 18 129 2.8E-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:0043248 proteasome assembly BP

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