Gene loci information

Transcript annotation

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

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_1 g11790 g11790.t6 TTS g11790.t6 18445527 18445527
chr_1 g11790 g11790.t6 isoform g11790.t6 18445624 18447039
chr_1 g11790 g11790.t6 exon g11790.t6.exon1 18445624 18445940
chr_1 g11790 g11790.t6 cds g11790.t6.CDS1 18445929 18445940
chr_1 g11790 g11790.t6 exon g11790.t6.exon2 18446029 18446745
chr_1 g11790 g11790.t6 cds g11790.t6.CDS2 18446029 18446745
chr_1 g11790 g11790.t6 exon g11790.t6.exon3 18446808 18446891
chr_1 g11790 g11790.t6 cds g11790.t6.CDS3 18446808 18446891
chr_1 g11790 g11790.t6 exon g11790.t6.exon4 18447007 18447039
chr_1 g11790 g11790.t6 cds g11790.t6.CDS4 18447007 18447039
chr_1 g11790 g11790.t6 TSS g11790.t6 18447113 18447113

Sequences

>g11790.t6 Gene=g11790 Length=1151
ATGGCAGAAATTGAAGCAATTGCAGTAGATAAGGAGGAAGCCACTGATGCAAATAAATCT
GTAAAAGAACCAAGCTTAGAAGAGCTTGATGTAGAAGATTTGTATACAAAATATAAGAAA
TTACAAAAACAATTGGAATTTTTGGAAGTTCAAGAAGAGTACATTAAAGATGAACAGCGT
AATTTAAAGAAAGAGTATTTACATGCACAAGAAGAAGTAAAGAGAATTCAATCAGTTCCA
CTTGTGATTGGTCAATTTTTAGAAGCGGTTGATCAAAATACTGGTATAGTAGGATCTACT
ACTGGATCAAATTATTATGTTCGAATTCTATCAACAATCGATCGTGAACTTTTAAAACCT
TCAGCAAGTGTGGCACTACATAAACATAGTAATGCACTTGTCGATGTTCTACCACCCGAG
GCAGACAGCTCAATTTCCATGCTTCAACCTGATGAAAAACCAGATGTTCAATATAGTGAT
ATCGGTGGCATGGATATGCAAAAACAAGAAATTCGTGAAGCAGTTGAACTTCCTTTAACT
CACTTCGAGTTATACAAACAAATTGGTATTGATCCACCTCGAGGTGTGCTAATGTTTGGA
CCGCCTGGTTGTGGCAAAACAATGTTGGCTAAAGCTGTTGCTCATCATACTACTGCTGCG
TTTATTCGAGTTGTTGGATCAGAATTTGTACAAAAATATCTTGGTGAAGGTCCAAGGATG
GTTCGAGATGTGTTTCGTTTAGCAAAAGAAAATTCACCAGCAATCATTTTCATTGATGAG
ATTGATGCGATTGCTACTAAACGTTTTGATGCACAAACTGGTGCCGATCGAGAGCTGATA
CATTAGATCCAGCACTGCTTCGTCCTGGTCGTTTGGATCGTAAAATTGAATTTCCTTTGC
CGGATAGACGTCAAAAACGTTTGATTTTTTCAACAATTACTTCAAAAATGAATTTATCAG
AAGATGTTGATTTGGAAGATTATGTTGCTCGACCTGATAAAATATCGGGAGCTGATATTA
ATGCAATTTGCCAAGAAGCAGGTATGCATGCTGTACGTGAAAATCGATATATTGTTTTAG
CAAAAGACTTTGAAAAAGGCTACAAGAATAATATCAAGAAAGATGAGCAAGAACACGAGT
TTTACAAATAA

>g11790.t6 Gene=g11790 Length=281
MAEIEAIAVDKEEATDANKSVKEPSLEELDVEDLYTKYKKLQKQLEFLEVQEEYIKDEQR
NLKKEYLHAQEEVKRIQSVPLVIGQFLEAVDQNTGIVGSTTGSNYYVRILSTIDRELLKP
SASVALHKHSNALVDVLPPEADSSISMLQPDEKPDVQYSDIGGMDMQKQEIREAVELPLT
HFELYKQIGIDPPRGVLMFGPPGCGKTMLAKAVAHHTTAAFIRVVGSEFVQKYLGEGPRM
VRDVFRLAKENSPAIIFIDEIDAIATKRFDAQTGADRELIH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g11790.t6 CDD cd00009 AAA 162 265 2.95121E-17
9 g11790.t6 Coils Coil Coil 31 65 -
8 g11790.t6 Gene3D G3DSA:2.40.50.140 - 36 152 2.1E-30
7 g11790.t6 Gene3D G3DSA:3.40.50.300 - 154 269 1.6E-46
3 g11790.t6 PANTHER PTHR23073 26S PROTEASOME REGULATORY SUBUNIT 23 279 3.2E-154
4 g11790.t6 PANTHER PTHR23073:SF120 26S PROTEASOME REGULATORY SUBUNIT 6B HOMOLOG 23 279 3.2E-154
1 g11790.t6 Pfam PF16450 Proteasomal ATPase OB C-terminal domain 83 138 5.8E-11
2 g11790.t6 Pfam PF00004 ATPase family associated with various cellular activities (AAA) 196 276 2.8E-26
6 g11790.t6 SMART SM00382 AAA_5 192 281 7.3E-8
5 g11790.t6 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 149 278 9.68E-36

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:0016887 ATP hydrolysis activity MF

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. There were no conditions that were differentially expressed