Gene loci information

Transcript annotation

  • This transcript has been annotated as 26S proteasome regulatory subunit 6A-A.

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 g2793 g2793.t5 TSS g2793.t5 20301584 20301584
chr_3 g2793 g2793.t5 isoform g2793.t5 20301681 20303092
chr_3 g2793 g2793.t5 exon g2793.t5.exon1 20301681 20302324
chr_3 g2793 g2793.t5 cds g2793.t5.CDS1 20301681 20302324
chr_3 g2793 g2793.t5 exon g2793.t5.exon2 20302390 20302427
chr_3 g2793 g2793.t5 cds g2793.t5.CDS2 20302390 20302427
chr_3 g2793 g2793.t5 exon g2793.t5.exon3 20302497 20303092
chr_3 g2793 g2793.t5 cds g2793.t5.CDS3 20302497 20303092
chr_3 g2793 g2793.t5 TTS g2793.t5 20303186 20303186

Sequences

>g2793.t5 Gene=g2793 Length=1278
ATGGCAGGAACACTTGAAGATAAATCAATTTGGGAAGACGAAGAATTACTTGGTGAAGAA
GTCTTGCGTATGCCAACAGAAGATATTCAAAATCGAACTCGATTGATGGACAATGAAATT
AAAATAATGAAGTCTGAAGTGATGAGAATCAATCATGAGTTACAGGCACAAAATGAGAAA
ATTAAGGACAATACTGAGAAGATTAAAGTGAACAAGACACTTCCCTATTTGGTTTCAAAT
GTTATTGAATTGCTCGATATAGATCCACAAGAAGAAGAAGATGATGGTGCAGTAAATTTG
CTTGATTCACAACGCAAAGGAAAGTGTGCAGTTATCAAGACTTCTACTCGTCAAACCTAT
TTCTTACCAGTTATCGGTTTAGTTGATCCTGAAAAATTAAAACCAGGCGATTTAGTTGGT
GTTAACAAAGATTCGTATTTGATTTTGGAAACACTTCCAGCAGAATATGATGCTCGAGTT
AAAGCTATGGAGGTTGATGAACGCCCGACAGAGCAATATTCGGATATTGGCGGTTTAGAT
AAGCAAATTCAAGAGCTGATCGAGGCAGTAGTTTTGCCAATGACACATAAAGAAAAATTC
AAAAATCTCGGTATTCATCCACCAAAAGGTGTACTTTTATATGGTCCACCAGGTACTGGC
AAAACTTTACTTGCAAGAGTAACTCAAACAAAGTCAACATTTTTAAAGCTTGCTGGTCCT
CAGCTCGTACAGATGTTTATTGGTGATGGTGCAAAATTAGTGCGTGATGCATTTGCCCTT
GCTAAAGAGAAAGCTCCTGCAATCATTTTTATCGATGAATTAGATGCTATAGGAACTAAA
CGTTTTGACTCAGAAAAGGCTGGTGATCGTGAAGTTCAGCGTACTATGTTAGAATTATTG
AATCAATTGGATGGCTTTAGTTCGCAAGCCGATATCAAAGTTATTGCTGCTACAAACCGT
GTTGATATCTTAGATCCTGCTCTTCTTCGTTCAGGTCGTTTAGATCGTAAAATTGAATTC
CCACATCCTAACGAAGAAGCACGTGCACGTATTATGCAAATTCATTCAAGAAAAATGAAC
GTTAGTCCAGATGTTAATTTTGAAGAATTAGCAAGAACGACAGACGATTTCAATGGAGCA
CAATGTAAAGCTGTTTGTGTTGAAGCTGGTATGATTGCACTTCGTCGTTCAGCGAGCACT
GTGACACATGAAGACTTTATGGATGCAATTATGGAAGTACAGGCTAAGAAGAAAGCCAAT
TTGAATTATTATGCTTAA

>g2793.t5 Gene=g2793 Length=425
MAGTLEDKSIWEDEELLGEEVLRMPTEDIQNRTRLMDNEIKIMKSEVMRINHELQAQNEK
IKDNTEKIKVNKTLPYLVSNVIELLDIDPQEEEDDGAVNLLDSQRKGKCAVIKTSTRQTY
FLPVIGLVDPEKLKPGDLVGVNKDSYLILETLPAEYDARVKAMEVDERPTEQYSDIGGLD
KQIQELIEAVVLPMTHKEKFKNLGIHPPKGVLLYGPPGTGKTLLARVTQTKSTFLKLAGP
QLVQMFIGDGAKLVRDAFALAKEKAPAIIFIDELDAIGTKRFDSEKAGDREVQRTMLELL
NQLDGFSSQADIKVIAATNRVDILDPALLRSGRLDRKIEFPHPNEEARARIMQIHSRKMN
VSPDVNFEELARTTDDFNGAQCKAVCVEAGMIALRRSASTVTHEDFMDAIMEVQAKKKAN
LNYYA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g2793.t5 CDD cd00009 AAA 177 341 5.41206E-22
10 g2793.t5 Coils Coil Coil 40 71 -
9 g2793.t5 Gene3D G3DSA:2.40.50.140 - 39 162 2.3E-20
7 g2793.t5 Gene3D G3DSA:3.40.50.300 - 163 342 3.3E-60
8 g2793.t5 Gene3D G3DSA:1.10.8.60 - 343 414 2.5E-23
4 g2793.t5 PANTHER PTHR23073 26S PROTEASOME REGULATORY SUBUNIT 13 423 5.1E-243
5 g2793.t5 PANTHER PTHR23073:SF90 26S PROTEASOME REGULATORY SUBUNIT 6A 13 423 5.1E-243
1 g2793.t5 Pfam PF16450 Proteasomal ATPase OB C-terminal domain 79 153 5.6E-17
2 g2793.t5 Pfam PF00004 ATPase family associated with various cellular activities (AAA) 211 341 5.2E-38
3 g2793.t5 Pfam PF17862 AAA+ lid domain 364 408 1.8E-11
12 g2793.t5 ProSitePatterns PS00674 AAA-protein family signature. 312 330 -
13 g2793.t5 SMART SM00382 AAA_5 207 344 4.4E-18
6 g2793.t5 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 172 416 3.04E-62
14 g2793.t5 TIGRFAM TIGR01242 26Sp45: 26S proteasome subunit P45 family 58 413 1.9E-124

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