Gene loci information

Transcript annotation

  • This transcript has been annotated as 26S proteasome regulatory subunit 8.

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 g7951 g7951.t9 TSS g7951.t9 27179950 27179950
chr_2 g7951 g7951.t9 isoform g7951.t9 27180053 27181540
chr_2 g7951 g7951.t9 exon g7951.t9.exon1 27180053 27180276
chr_2 g7951 g7951.t9 cds g7951.t9.CDS1 27180138 27180276
chr_2 g7951 g7951.t9 exon g7951.t9.exon2 27180336 27180738
chr_2 g7951 g7951.t9 cds g7951.t9.CDS2 27180336 27180738
chr_2 g7951 g7951.t9 exon g7951.t9.exon3 27180800 27181176
chr_2 g7951 g7951.t9 cds g7951.t9.CDS3 27180800 27181176
chr_2 g7951 g7951.t9 exon g7951.t9.exon4 27181266 27181540
chr_2 g7951 g7951.t9 cds g7951.t9.CDS4 27181266 27181540
chr_2 g7951 g7951.t9 TTS g7951.t9 27181627 27181627

Sequences

>g7951.t9 Gene=g7951 Length=1279
ATGACGGCCTCGTCTAAGGTAAGTTATTGAATATTAATTCAAATAAATTTAACACGAAAG
ATTAATGGAAGACATAAAACTTTAGATGGAAATTGATCAACAGCGAGGCGAAGGTTTTCG
CAATTATTACATTCAAAAAATTGAAGAATTACAGTTGATAGTTAATGAAAAGAGTCAGAA
CCTTCGTCGTCTTCAAGCACAACGTAATGAGTTGAATGCAAAAGTTCGAATGTTGCGTGA
AGAACTGCAATTGCTGCAAGAACAAGGAAGTTATGTTGGAGAAGTAGTGAAACCAATGGA
TAAGAAGAAAGTATTAGTAAAAGTTCATCCAGAGGGAAAGTTTGTTGTCGATTTAGACAA
GAACATTGACATCAATGATGTTACTCCAAATTCTCGGGTTGCTCTAAGAAATGAGAGTTA
CACTTTGCACAAGATTCTACCAAATAAGGTTGATCCATTAGTTTCACTCATGATGGTCGA
GAAAGTTCCGGACTCAACTTATGAAATGGTTGGTGGTTTAGATAAACAAATTAAGGAAAT
TAAAGAAGTCATTGAATTGCCAGTAAAACATCCAGAATTATTTGATGCTCTTGGTATTGC
TCAACCAAAAGGTGTCTTATTATATGGTCCGCCAGGTACTGGTAAAACTCTTCTCGCTCG
TGCGGTTGCTCATCACACAGAATGTACTTTCATTCGTGTTTCTGGATCTGAACTTGTTCA
GAAGTTTATAGGAGAGGGCTCACGTATGGTTCGAGAATTATTCGTAATGGCAAGAGAACA
TGCACCTTCCATCATTTTTATGGATGAAATTGATTCTATCGGTTCATCTCGTATTGAATC
TGGCAGCGGTGGTGATTCTGAAGTACAACGAACAATGTTGGAATTACTTAATCAGCTTGA
TGGTTTCGAAGCAACTAAAAATATTAAGGTCATCATGGCAACGAATCGTATTGACATTTT
AGATCAGGCGCTTTTGAGACCCGGAAGAATTGATAGAAAGATTGAATTTCCTCCACCTAA
TGAGGAAGCTCGAGGAGATATTTTAAAGATTCATTCCCGCAAGATGAATTTGACCCGCGG
CATTAATTTAAAAAAGATAGCCGAGTTGATGCCAGGTGCTTCGGGCGCAGAAGTTAAAGG
TGTTTGTACTGAAGCTGGCATGTACGCTTTGCGTGAACGTCGTGTTCATGTTACACAAGA
AGACTTTGAGATGGCTGTTGCCAAAATTATGCAAAAAGATTCCGAGAAGAATATGTCGAT
TAAAAAGTTGTGGAAGTAA

>g7951.t9 Gene=g7951 Length=397
MEIDQQRGEGFRNYYIQKIEELQLIVNEKSQNLRRLQAQRNELNAKVRMLREELQLLQEQ
GSYVGEVVKPMDKKKVLVKVHPEGKFVVDLDKNIDINDVTPNSRVALRNESYTLHKILPN
KVDPLVSLMMVEKVPDSTYEMVGGLDKQIKEIKEVIELPVKHPELFDALGIAQPKGVLLY
GPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMD
EIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKVIMATNRIDILDQALLRPG
RIDRKIEFPPPNEEARGDILKIHSRKMNLTRGINLKKIAELMPGASGAEVKGVCTEAGMY
ALRERRVHVTQEDFEMAVAKIMQKDSEKNMSIKKLWK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g7951.t9 CDD cd00009 AAA 143 310 2.51612E-28
10 g7951.t9 Coils Coil Coil 19 60 -
9 g7951.t9 Gene3D G3DSA:2.40.50.140 - 26 129 2.4E-37
7 g7951.t9 Gene3D G3DSA:3.40.50.300 - 130 310 5.8E-69
8 g7951.t9 Gene3D G3DSA:1.10.8.60 - 311 383 8.9E-25
4 g7951.t9 PANTHER PTHR23073 26S PROTEASOME REGULATORY SUBUNIT 6 394 1.9E-263
5 g7951.t9 PANTHER PTHR23073:SF102 BNAA02G04630D PROTEIN 6 394 1.9E-263
1 g7951.t9 Pfam PF16450 Proteasomal ATPase OB C-terminal domain 64 119 2.4E-8
2 g7951.t9 Pfam PF00004 ATPase family associated with various cellular activities (AAA) 177 309 1.2E-42
3 g7951.t9 Pfam PF17862 AAA+ lid domain 333 375 8.0E-13
12 g7951.t9 ProSitePatterns PS00674 AAA-protein family signature. 280 298 -
13 g7951.t9 SMART SM00382 AAA_5 173 312 3.4E-23
6 g7951.t9 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 130 380 3.89E-71
14 g7951.t9 TIGRFAM TIGR01242 26Sp45: 26S proteasome subunit P45 family 25 382 7.2E-138

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:0030163 protein catabolic process BP
GO:0005737 cytoplasm CC
GO:0016887 ATP hydrolysis activity MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

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