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.t5 TTS g6491.t5 17249251 17249251
chr_2 g6491 g6491.t5 isoform g6491.t5 17249327 17250386
chr_2 g6491 g6491.t5 exon g6491.t5.exon1 17249327 17249429
chr_2 g6491 g6491.t5 cds g6491.t5.CDS1 17249327 17249429
chr_2 g6491 g6491.t5 exon g6491.t5.exon2 17249488 17250029
chr_2 g6491 g6491.t5 cds g6491.t5.CDS2 17249488 17250029
chr_2 g6491 g6491.t5 exon g6491.t5.exon3 17250083 17250386
chr_2 g6491 g6491.t5 cds g6491.t5.CDS3 17250083 17250304
chr_2 g6491 g6491.t5 TSS g6491.t5 17250826 17250826

Sequences

>g6491.t5 Gene=g6491 Length=949
AAATGGTCCACGTTATGTTGTTGGTTGTAGACGTCAATTGGACAAGTCAAAATTAAAATC
AGGAACAAGAGTTGCTTTAGATATGACAACACTCACTATTATGCGTTATTTACCACGAGA
AGTTGATCCTCTCGTGTACAATATGTCGCATGAAGATCCAGGCGATGTCACTTATTCTGC
TATTGGTGGTCTCTCTGAACAAATTCGAGAATTAAGAGAAGTCATTGAACTTCCTTTATT
AAATCCAGAGTTATTTTTAAGAGTTGGTATCACTCCACCAAAGGGATGTCTTCTTTATGG
ACCACCTGGTACAGGAAAAACTTTATTAGCTCGTGCTGTAGCATCACAATTGGATGCAAA
TTTCTTAAAAGTCGTATCAAGTGCTATTGTCGACAAATATATTGGTGAATCAGCACGTTT
GATTCGTGAAATGTTTAATTATGCAAGAGATCATCAACCATGTATTATTTTTATGGATGA
AATTGATGCTATTGGTGGAAGACGTTTTTCAGAAGGCACATCAGCAGATCGTGAAATTCA
ACGTACTTTGATGGAATTATTGAATCAAATGGACGGTTTTGATTCACTTGGTCAAGTTAA
AATGATTATGGCCACAAATCGACCTGATACATTAGATCCCGCTCTTTTACGTCCTGGAAG
ATTGGATCGTAAAATCGAAATTCCGCTGCCAAATGAGCAAGCACGTCTTGAAATTCTCAA
AATTCATGCTGGTCCAATAGCTAAGCATGGTGATATCGATTATGAGGCAGTTGTGAAACT
TTCAGATTCATTCAATGGAGCTGATTTGAGAAATGTTTGTACTGAAGCTGGTTTATTTGC
TATTCGTGCTGAAAGAGAGTACGTAATACAAGAAGACTTTATGAAAGCTGTAAGAAAAGT
ATCTGATAATAAGAAATTGGAGAGCAAATTAGACTATAAGCCAGTTTAA

>g6491.t5 Gene=g6491 Length=288
MTTLTIMRYLPREVDPLVYNMSHEDPGDVTYSAIGGLSEQIRELREVIELPLLNPELFLR
VGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARLIREMFNY
ARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIMATNR
PDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIHAGPIAKHGDIDYEAVVKLSDSFNGA
DLRNVCTEAGLFAIRAEREYVIQEDFMKAVRKVSDNKKLESKLDYKPV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g6491.t5 CDD cd00009 AAA 35 202 5.47212E-27
8 g6491.t5 Gene3D G3DSA:2.40.50.140 - 1 21 2.2E-5
6 g6491.t5 Gene3D G3DSA:3.40.50.300 - 22 202 1.5E-67
7 g6491.t5 Gene3D G3DSA:1.10.8.60 - 203 274 8.1E-21
3 g6491.t5 PANTHER PTHR23073 26S PROTEASOME REGULATORY SUBUNIT 1 288 1.6E-184
4 g6491.t5 PANTHER PTHR23073:SF76 26S PROTEASOME REGULATORY SUBUNIT 10B 1 288 1.6E-184
1 g6491.t5 Pfam PF00004 ATPase family associated with various cellular activities (AAA) 70 202 4.2E-44
2 g6491.t5 Pfam PF17862 AAA+ lid domain 224 267 2.3E-10
10 g6491.t5 ProSitePatterns PS00674 AAA-protein family signature. 172 190 -
11 g6491.t5 SMART SM00382 AAA_5 65 204 8.6E-21
5 g6491.t5 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 28 279 9.5E-69
12 g6491.t5 TIGRFAM TIGR01242 26Sp45: 26S proteasome subunit P45 family 3 273 2.1E-118

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:0030433 ubiquitin-dependent ERAD pathway BP
GO:0030163 protein catabolic process BP
GO:0005737 cytoplasm CC
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