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.t4 TSS g7951.t4 27179950 27179950
chr_2 g7951 g7951.t4 isoform g7951.t4 27180053 27181167
chr_2 g7951 g7951.t4 exon g7951.t4.exon1 27180053 27180070
chr_2 g7951 g7951.t4 cds g7951.t4.CDS1 27180053 27180070
chr_2 g7951 g7951.t4 exon g7951.t4.exon2 27180138 27180276
chr_2 g7951 g7951.t4 cds g7951.t4.CDS2 27180138 27180276
chr_2 g7951 g7951.t4 exon g7951.t4.exon3 27180336 27180738
chr_2 g7951 g7951.t4 cds g7951.t4.CDS3 27180336 27180738
chr_2 g7951 g7951.t4 exon g7951.t4.exon4 27180800 27181167
chr_2 g7951 g7951.t4 cds g7951.t4.CDS4 27180800 27181166
chr_2 g7951 g7951.t4 TTS g7951.t4 27181627 27181627

Sequences

>g7951.t4 Gene=g7951 Length=928
ATGACGGCCTCGTCTAAGATGGAAATTGATCAACAGCGAGGCGAAGGTTTTCGCAATTAT
TACATTCAAAAAATTGAAGAATTACAGTTGATAGTTAATGAAAAGAGTCAGAACCTTCGT
CGTCTTCAAGCACAACGTAATGAGTTGAATGCAAAAGTTCGAATGTTGCGTGAAGAACTG
CAATTGCTGCAAGAACAAGGAAGTTATGTTGGAGAAGTAGTGAAACCAATGGATAAGAAG
AAAGTATTAGTAAAAGTTCATCCAGAGGGAAAGTTTGTTGTCGATTTAGACAAGAACATT
GACATCAATGATGTTACTCCAAATTCTCGGGTTGCTCTAAGAAATGAGAGTTACACTTTG
CACAAGATTCTACCAAATAAGGTTGATCCATTAGTTTCACTCATGATGGTCGAGAAAGTT
CCGGACTCAACTTATGAAATGGTTGGTGGTTTAGATAAACAAATTAAGGAAATTAAAGAA
GTCATTGAATTGCCAGTAAAACATCCAGAATTATTTGATGCTCTTGGTATTGCTCAACCA
AAAGGTGTCTTATTATATGGTCCGCCAGGTACTGGTAAAACTCTTCTCGCTCGTGCGGTT
GCTCATCACACAGAATGTACTTTCATTCGTGTTTCTGGATCTGAACTTGTTCAGAAGTTT
ATAGGAGAGGGCTCACGTATGGTTCGAGAATTATTCGTAATGGCAAGAGAACATGCACCT
TCCATCATTTTTATGGATGAAATTGATTCTATCGGTTCATCTCGTATTGAATCTGGCAGC
GGTGGTGATTCTGAAGTACAACGAACAATGTTGGAATTACTTAATCAGCTTGATGGTTTC
GAAGCAACTAAAAATATTAAGGTCATCATGGCAACGAATCGTATTGACATTTTAGATCAG
GCGCTTTTGAGACCCGGAAGAATTGATA

>g7951.t4 Gene=g7951 Length=309
MTASSKMEIDQQRGEGFRNYYIQKIEELQLIVNEKSQNLRRLQAQRNELNAKVRMLREEL
QLLQEQGSYVGEVVKPMDKKKVLVKVHPEGKFVVDLDKNIDINDVTPNSRVALRNESYTL
HKILPNKVDPLVSLMMVEKVPDSTYEMVGGLDKQIKEIKEVIELPVKHPELFDALGIAQP
KGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAP
SIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKVIMATNRIDILDQ
ALLRPGRID

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g7951.t4 CDD cd00009 AAA 149 309 2.13141E-26
8 g7951.t4 Coils Coil Coil 25 66 -
7 g7951.t4 Gene3D G3DSA:2.40.50.140 - 32 135 1.5E-37
6 g7951.t4 Gene3D G3DSA:3.40.50.300 - 136 309 3.4E-66
3 g7951.t4 PANTHER PTHR23073 26S PROTEASOME REGULATORY SUBUNIT 12 309 3.0E-202
4 g7951.t4 PANTHER PTHR23073:SF102 BNAA02G04630D PROTEIN 12 309 3.0E-202
1 g7951.t4 Pfam PF16450 Proteasomal ATPase OB C-terminal domain 70 125 1.6E-8
2 g7951.t4 Pfam PF00004 ATPase family associated with various cellular activities (AAA) 183 309 3.0E-40
10 g7951.t4 ProSitePatterns PS00674 AAA-protein family signature. 286 304 -
11 g7951.t4 SMART SM00382 AAA_5 179 309 1.3E-16
5 g7951.t4 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 136 308 1.24E-51
12 g7951.t4 TIGRFAM TIGR01242 26Sp45: 26S proteasome subunit P45 family 31 309 7.0E-106

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