Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Speckle-type POZ protein B.

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 g6146 g6146.t3 TTS g6146.t3 14501026 14501026
chr_2 g6146 g6146.t3 isoform g6146.t3 14501110 14502269
chr_2 g6146 g6146.t3 exon g6146.t3.exon1 14501110 14501730
chr_2 g6146 g6146.t3 cds g6146.t3.CDS1 14501110 14501730
chr_2 g6146 g6146.t3 exon g6146.t3.exon2 14501797 14502070
chr_2 g6146 g6146.t3 cds g6146.t3.CDS2 14501797 14502070
chr_2 g6146 g6146.t3 exon g6146.t3.exon3 14502229 14502269
chr_2 g6146 g6146.t3 cds g6146.t3.CDS3 14502229 14502269
chr_2 g6146 g6146.t3 TSS g6146.t3 14502354 14502354

Sequences

>g6146.t3 Gene=g6146 Length=936
ATGTCTGATAGTTATAAATATACAGCTAAAAGAGAAATATTGTGCCTCGAATTCAGATGT
GACGATAATATAGTTTATTTTTTCTTGACTCGGAAAACTTTGGAAACGGATAATTTTACT
GCATATCAAGAACTGGATATTTATAAACCATATGGATTCTATGACATACGCCTTTACAAA
AAATGCGATGAGTCAAAAGTATACACCAAAAACAAATGTGTTGGATGGAGCTGGAAAATT
GAAAATTTCCGAAGCTTCTTAGATGATCACCGATATTTTTTTTCTAATAGAAATGTTTTG
AAATTTTCACTCAAGTTGACATTAAGACAAAAACGAAGACAAATTAAGATAGTAGAATCA
AATGAATTGCTTCGCAATACAAAACTATTTAATTCAATCAAGGATAGCGACTTTACGTGC
ATATCTTCAGATGGCAAAGAATTTCCTGTTCATTCCAAGATTTTAGCTTCACAATCTCCA
GTTTTCGACAAAATGTTTAATGCTGATATGAGTGAGACTAAAACAAAGACTGTTAAAATT
GATGATATTGATGGCGATACATTTTTGGAATTTTTGAGATTCATATATACTGGACAAGTA
GAGAATTTAGAAGATATGGTTTCATCACTGATCTATGTTGCTGATAAATATGAAATAATC
AAACTCAAGAAGCTATGTACTGAATCACTTATGAAAAATTTGTCTATTGGAAATGCTTCG
GAAACACTCATTTTAGCTGATCGCTTCAACGAAAATTTCTTGCTATATGAATGCATACAA
ATAATTATCAGAAGCAATCATAATTTTAGATCAAATAAGAGCCTGGAGCAAAACATCAAA
GAGTTGATTGATTTTGAATTAGTTAAAAAAGTGATGGATATTAATGATATCATTAAAGAA
AATGATAAAATTATTGAATTTAACAGTACACTTTAA

>g6146.t3 Gene=g6146 Length=311
MSDSYKYTAKREILCLEFRCDDNIVYFFLTRKTLETDNFTAYQELDIYKPYGFYDIRLYK
KCDESKVYTKNKCVGWSWKIENFRSFLDDHRYFFSNRNVLKFSLKLTLRQKRRQIKIVES
NELLRNTKLFNSIKDSDFTCISSDGKEFPVHSKILASQSPVFDKMFNADMSETKTKTVKI
DDIDGDTFLEFLRFIYTGQVENLEDMVSSLIYVADKYEIIKLKKLCTESLMKNLSIGNAS
ETLILADRFNENFLLYECIQIIIRSNHNFRSNKSLEQNIKELIDFELVKKVMDINDIIKE
NDKIIEFNSTL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g6146.t3 Coils Coil Coil 304 311 -
6 g6146.t3 Gene3D G3DSA:3.30.710.10 Potassium Channel Kv1.1; Chain A 104 263 7.1E-39
2 g6146.t3 PANTHER PTHR24413:SF213 FI01029P-RELATED 62 280 2.5E-41
3 g6146.t3 PANTHER PTHR24413 SPECKLE-TYPE POZ PROTEIN 62 280 2.5E-41
1 g6146.t3 Pfam PF00651 BTB/POZ domain 128 233 8.1E-24
8 g6146.t3 ProSiteProfiles PS50097 BTB domain profile. 136 204 16.611
5 g6146.t3 SMART SM00225 BTB_4 136 234 6.8E-22
4 g6146.t3 SUPERFAMILY SSF54695 POZ domain 140 232 2.55E-23

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

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