Gene loci information

Transcript annotation

  • This transcript has been annotated as Longitudinals lacking protein, isoforms A/B/D/L.

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 g384 g384.t10 isoform g384.t10 3109794 3117504
chr_3 g384 g384.t10 exon g384.t10.exon1 3109794 3109959
chr_3 g384 g384.t10 cds g384.t10.CDS1 3109795 3109959
chr_3 g384 g384.t10 exon g384.t10.exon2 3110143 3110412
chr_3 g384 g384.t10 cds g384.t10.CDS2 3110143 3110412
chr_3 g384 g384.t10 exon g384.t10.exon3 3110485 3110779
chr_3 g384 g384.t10 cds g384.t10.CDS3 3110485 3110658
chr_3 g384 g384.t10 exon g384.t10.exon4 3117362 3117504
chr_3 g384 g384.t10 TSS g384.t10 3117507 3117507
chr_3 g384 g384.t10 TTS g384.t10 NA NA

Sequences

>g384.t10 Gene=g384 Length=874
TGAGTTAAATTAGTTGAGGAGTAAAGACGCGTTTTTTGTGTGCTCGTATAAAAAAGACGC
CATTTTGAAAAAAATAATATTTAAAACCACGGAAAAATCAAGTATTAGATTTGTGATATT
AAATGAAGACTGTGCTAATTACGATTCAACCTGAAAAGTGAACGAAGAGAGAATTCAACT
ATCACAAGAGCAGAACACAGAATAAAATAAATTTTTCCGTTATAACTCAAGCGACTCAAA
ACTTAGGATCATCCCGCCTTCATCATGGATGATGATCAACAATTTTGTCTCCGATGGAAT
AATCATCAAAGTACACTGATATCGGTATTTGACACTTTATTGGAAAGTAATACGCTCGTC
GATTGCACATTGGCGGCGGAAGGAAAATTTTTGAAAGCACATAAAGTCGTCTTATCAGCA
TGTAGTCCATATTTTGCTACTTTGTTGTCACAACAGTATGATAAGCATCCAATTTTCATT
CTAAAGGATGTGAAATTTCAAGAATTGCGTGCCATGATGGACTACATGTATCGTGGAGAA
GTAAACATTTCTCAAGATCAGTTGGCAGCTTTACTTAAGGCAGCCGAGTCTTTACAAATT
AAAGGTCTCTCTGACAGCCGTGGAGGTAGCAGCAACAACAATTCCACTAATGCGCCATCT
CAAGCACATAAGAGTGATGCAAAATCACATGTACCTGCACCACCAAAGGCTTCAGGCTTA
ACAATAGAAAACAAAAGACCATTGCTGAGAACAGATTTTGATGCGGACATATCTGGCTCT
CGAGAAGGCTCCGTCTCACCATCGACACGAAAGCGTAAAAAAGTGAATCAGCGTCGTAAG
AGCTTAATCGAAGCAAATAATTTACTAGGTAAGC

>g384.t10 Gene=g384 Length=203
MDDDQQFCLRWNNHQSTLISVFDTLLESNTLVDCTLAAEGKFLKAHKVVLSACSPYFATL
LSQQYDKHPIFILKDVKFQELRAMMDYMYRGEVNISQDQLAALLKAAESLQIKGLSDSRG
GSSNNNSTNAPSQAHKSDAKSHVPAPPKASGLTIENKRPLLRTDFDADISGSREGSVSPS
TRKRKKVNQRRKSLIEANNLLGK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g384.t10 CDD cd18315 BTB_POZ_BAB-like 31 114 1.19406E-41
5 g384.t10 Gene3D G3DSA:3.30.710.10 Potassium Channel Kv1.1; Chain A 8 156 1.1E-34
8 g384.t10 MobiDBLite mobidb-lite consensus disorder prediction 115 203 -
9 g384.t10 MobiDBLite mobidb-lite consensus disorder prediction 115 136 -
2 g384.t10 PANTHER PTHR23110:SF78 LONGITUDINALS LACKING PROTEIN, ISOFORMS F/I/K/T 1 193 7.6E-94
3 g384.t10 PANTHER PTHR23110 BTB DOMAIN TRANSCRIPTION FACTOR 1 193 7.6E-94
1 g384.t10 Pfam PF00651 BTB/POZ domain 22 117 5.0E-26
10 g384.t10 ProSiteProfiles PS50097 BTB domain profile. 32 97 21.181
7 g384.t10 SMART SM00225 BTB_4 32 127 2.8E-23
4 g384.t10 SUPERFAMILY SSF54695 POZ domain 7 116 3.82E-30

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