Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Polyglutamine-binding protein 1.

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 g2325 g2325.t1 TTS g2325.t1 16839229 16839229
chr_3 g2325 g2325.t1 isoform g2325.t1 16839256 16840351
chr_3 g2325 g2325.t1 exon g2325.t1.exon1 16839256 16839976
chr_3 g2325 g2325.t1 cds g2325.t1.CDS1 16839256 16839976
chr_3 g2325 g2325.t1 exon g2325.t1.exon2 16840041 16840200
chr_3 g2325 g2325.t1 cds g2325.t1.CDS2 16840041 16840200
chr_3 g2325 g2325.t1 exon g2325.t1.exon3 16840285 16840351
chr_3 g2325 g2325.t1 cds g2325.t1.CDS3 16840285 16840351
chr_3 g2325 g2325.t1 TSS g2325.t1 16840424 16840424

Sequences

>g2325.t1 Gene=g2325 Length=948
ATGCCACTGCCTGCAGCTCTATTAGCAAGATTACAAAAACGCGGAATTGTCAATGATGGA
CCAAAGATACAAGAGGAAGTTTTTGTTGAAAATCACGATAATGATGATGAAATCAATCCT
GAAAACTTTGAATATCAAGCGCGGAAGCGTGATGACTTTAGATGGACAGATAAATTAAAA
AGAAGATTCAAAGAGACAACAAAAGGATTGAGTGGTTGCCCAAATAAATGGAATATTCAT
CATGTTTGCACAGTATATTGCTCTGAAAGATGGGGTGAAGGAAATTCGAAACCATCAAAA
GCTTACAAAGAAAGATTCCAACGTTTGCTTGATCGTTATCCTTTGCCTAAGAAAGGCAAT
TGGGCTTATATTTATGATCCAGGATGTCAAGCTTATTATTTTTGGAATAAAGACGATAAT
ACAGTTTCGTGGCTTCCACCAAAACATCCTAAAGCTCAAATAGGAAAATCTGCAGCAACA
CTTAGAAGTGAAAAAGATCGTCCTGATTTAGAATCTACTGATGAACCTGAAGCGAATGTT
CAGATGATTCCACCTACATCTAGTAATTCTCCACCACCATCAGAAGAGCGATATCAGAGA
CCAGTGGTCACAAAGAAAACAAAATCTCGAGATTTAGAGAAAATTTTGAGAACAAAGAAA
GGACGTAAGCAATTCTATGAGAACTCAGACATTATTGATCCTTGTGATCCCGCTTCATAT
GGAGATTGTGGCAGAGGCAAATGGAGTTCTGGCTTAAATCAAGAAGAAAAAGGCGCAGCA
GATTCTACTGCAAGTGGTCCACTATTTCAACAGCGACCATATCCATCGCCTGGTGATGTG
CTTCGTGCTCAAGGAAAGCGAAAGGAATTGTCAGATAATTCTGATCAAGAAGATGATACT
CACGATTCAGAAAAGAAGCAGCGACGATACAGTGAAGAAATGGAATGA

>g2325.t1 Gene=g2325 Length=315
MPLPAALLARLQKRGIVNDGPKIQEEVFVENHDNDDEINPENFEYQARKRDDFRWTDKLK
RRFKETTKGLSGCPNKWNIHHVCTVYCSERWGEGNSKPSKAYKERFQRLLDRYPLPKKGN
WAYIYDPGCQAYYFWNKDDNTVSWLPPKHPKAQIGKSAATLRSEKDRPDLESTDEPEANV
QMIPPTSSNSPPPSEERYQRPVVTKKTKSRDLEKILRTKKGRKQFYENSDIIDPCDPASY
GDCGRGKWSSGLNQEEKGAADSTASGPLFQQRPYPSPGDVLRAQGKRKELSDNSDQEDDT
HDSEKKQRRYSEEME

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g2325.t1 Gene3D G3DSA:3.40.30.10 Glutaredoxin 201 294 2.8E-20
6 g2325.t1 MobiDBLite mobidb-lite consensus disorder prediction 151 211 -
7 g2325.t1 MobiDBLite mobidb-lite consensus disorder prediction 160 174 -
5 g2325.t1 MobiDBLite mobidb-lite consensus disorder prediction 251 315 -
4 g2325.t1 MobiDBLite mobidb-lite consensus disorder prediction 255 270 -
8 g2325.t1 MobiDBLite mobidb-lite consensus disorder prediction 282 315 -
1 g2325.t1 PANTHER PTHR21737 POLYGLUTAMINE BINDING PROTEIN 1/MARVEL MEMBRANE-ASSOCIATING DOMAIN CONTAINING 3 2 289 5.1E-48
2 g2325.t1 PANTHER PTHR21737:SF3 POLYGLUTAMINE-BINDING PROTEIN 1 2 289 5.1E-48
10 g2325.t1 ProSiteProfiles PS50020 WW/rsp5/WWP domain profile. 115 149 8.709
3 g2325.t1 SUPERFAMILY SSF51045 WW domain 111 150 5.28E-5

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:0005515 protein binding 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