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.t4 TTS g2325.t4 16839229 16839229
chr_3 g2325 g2325.t4 isoform g2325.t4 16839256 16840351
chr_3 g2325 g2325.t4 exon g2325.t4.exon1 16839256 16839976
chr_3 g2325 g2325.t4 cds g2325.t4.CDS1 16839256 16839976
chr_3 g2325 g2325.t4 exon g2325.t4.exon2 16840041 16840200
chr_3 g2325 g2325.t4 cds g2325.t4.CDS2 16840041 16840200
chr_3 g2325 g2325.t4 exon g2325.t4.exon3 16840279 16840351
chr_3 g2325 g2325.t4 cds g2325.t4.CDS3 16840279 16840351
chr_3 g2325 g2325.t4 TSS g2325.t4 16840424 16840424

Sequences

>g2325.t4 Gene=g2325 Length=954
ATGCCACTGCCTGCAGCTCTATTAGCAAGATTACAAAAACGCGGAATTGTCAATGATGGA
CCAAAGAGTAAGATACAAGAGGAAGTTTTTGTTGAAAATCACGATAATGATGATGAAATC
AATCCTGAAAACTTTGAATATCAAGCGCGGAAGCGTGATGACTTTAGATGGACAGATAAA
TTAAAAAGAAGATTCAAAGAGACAACAAAAGGATTGAGTGGTTGCCCAAATAAATGGAAT
ATTCATCATGTTTGCACAGTATATTGCTCTGAAAGATGGGGTGAAGGAAATTCGAAACCA
TCAAAAGCTTACAAAGAAAGATTCCAACGTTTGCTTGATCGTTATCCTTTGCCTAAGAAA
GGCAATTGGGCTTATATTTATGATCCAGGATGTCAAGCTTATTATTTTTGGAATAAAGAC
GATAATACAGTTTCGTGGCTTCCACCAAAACATCCTAAAGCTCAAATAGGAAAATCTGCA
GCAACACTTAGAAGTGAAAAAGATCGTCCTGATTTAGAATCTACTGATGAACCTGAAGCG
AATGTTCAGATGATTCCACCTACATCTAGTAATTCTCCACCACCATCAGAAGAGCGATAT
CAGAGACCAGTGGTCACAAAGAAAACAAAATCTCGAGATTTAGAGAAAATTTTGAGAACA
AAGAAAGGACGTAAGCAATTCTATGAGAACTCAGACATTATTGATCCTTGTGATCCCGCT
TCATATGGAGATTGTGGCAGAGGCAAATGGAGTTCTGGCTTAAATCAAGAAGAAAAAGGC
GCAGCAGATTCTACTGCAAGTGGTCCACTATTTCAACAGCGACCATATCCATCGCCTGGT
GATGTGCTTCGTGCTCAAGGAAAGCGAAAGGAATTGTCAGATAATTCTGATCAAGAAGAT
GATACTCACGATTCAGAAAAGAAGCAGCGACGATACAGTGAAGAAATGGAATGA

>g2325.t4 Gene=g2325 Length=317
MPLPAALLARLQKRGIVNDGPKSKIQEEVFVENHDNDDEINPENFEYQARKRDDFRWTDK
LKRRFKETTKGLSGCPNKWNIHHVCTVYCSERWGEGNSKPSKAYKERFQRLLDRYPLPKK
GNWAYIYDPGCQAYYFWNKDDNTVSWLPPKHPKAQIGKSAATLRSEKDRPDLESTDEPEA
NVQMIPPTSSNSPPPSEERYQRPVVTKKTKSRDLEKILRTKKGRKQFYENSDIIDPCDPA
SYGDCGRGKWSSGLNQEEKGAADSTASGPLFQQRPYPSPGDVLRAQGKRKELSDNSDQED
DTHDSEKKQRRYSEEME

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g2325.t4 Gene3D G3DSA:3.40.30.10 Glutaredoxin 203 296 2.8E-20
5 g2325.t4 MobiDBLite mobidb-lite consensus disorder prediction 153 213 -
8 g2325.t4 MobiDBLite mobidb-lite consensus disorder prediction 162 176 -
4 g2325.t4 MobiDBLite mobidb-lite consensus disorder prediction 253 317 -
6 g2325.t4 MobiDBLite mobidb-lite consensus disorder prediction 257 272 -
7 g2325.t4 MobiDBLite mobidb-lite consensus disorder prediction 284 317 -
1 g2325.t4 PANTHER PTHR21737 POLYGLUTAMINE BINDING PROTEIN 1/MARVEL MEMBRANE-ASSOCIATING DOMAIN CONTAINING 3 2 291 4.1E-48
2 g2325.t4 PANTHER PTHR21737:SF3 POLYGLUTAMINE-BINDING PROTEIN 1 2 291 4.1E-48
10 g2325.t4 ProSiteProfiles PS50020 WW/rsp5/WWP domain profile. 117 151 8.709
3 g2325.t4 SUPERFAMILY SSF51045 WW domain 113 152 5.56E-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