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.t8 isoform g384.t8 3109702 3117504
chr_3 g384 g384.t8 exon g384.t8.exon1 3109702 3109719
chr_3 g384 g384.t8 cds g384.t8.CDS1 3109703 3109719
chr_3 g384 g384.t8 exon g384.t8.exon2 3109800 3109959
chr_3 g384 g384.t8 cds g384.t8.CDS2 3109800 3109959
chr_3 g384 g384.t8 exon g384.t8.exon3 3110143 3110412
chr_3 g384 g384.t8 cds g384.t8.CDS3 3110143 3110412
chr_3 g384 g384.t8 exon g384.t8.exon4 3110485 3110782
chr_3 g384 g384.t8 cds g384.t8.CDS4 3110485 3110658
chr_3 g384 g384.t8 exon g384.t8.exon5 3117362 3117504
chr_3 g384 g384.t8 TSS g384.t8 3117507 3117507
chr_3 g384 g384.t8 TTS g384.t8 NA NA

Sequences

>g384.t8 Gene=g384 Length=889
TGAGTTAAATTAGTTGAGGAGTAAAGACGCGTTTTTTGTGTGCTCGTATAAAAAAGACGC
CATTTTGAAAAAAATAATATTTAAAACCACGGAAAAATCAAGTATTAGATTTGTGATATT
AAATGAAGACTGTGCTAATTACGCAGATTCAACCTGAAAAGTGAACGAAGAGAGAATTCA
ACTATCACAAGAGCAGAACACAGAATAAAATAAATTTTTCCGTTATAACTCAAGCGACTC
AAAACTTAGGATCATCCCGCCTTCATCATGGATGATGATCAACAATTTTGTCTCCGATGG
AATAATCATCAAAGTACACTGATATCGGTATTTGACACTTTATTGGAAAGTAATACGCTC
GTCGATTGCACATTGGCGGCGGAAGGAAAATTTTTGAAAGCACATAAAGTCGTCTTATCA
GCATGTAGTCCATATTTTGCTACTTTGTTGTCACAACAGTATGATAAGCATCCAATTTTC
ATTCTAAAGGATGTGAAATTTCAAGAATTGCGTGCCATGATGGACTACATGTATCGTGGA
GAAGTAAACATTTCTCAAGATCAGTTGGCAGCTTTACTTAAGGCAGCCGAGTCTTTACAA
ATTAAAGGTCTCTCTGACAGCCGTGGAGGTAGCAGCAACAACAATTCCACTAATGCGCCA
TCTCAAGCACATAAGAGTGATGCAAAATCACATGTACCTGCACCACCAAAGGCTTCAGGC
TTAACAATAGAAAACAAAAGACCATTGCTGAGAACAGATTTTGATGCGGACATATCTGGC
TCTCGAGAAGGCTCCGTCTCACCATCGACACGAAAGCGTAAAAAAGTGAATCAGCGTCGT
AAGAGCTTAATCGAAGCAAATAATTTACTAGATAATCATGACCAGCACT

>g384.t8 Gene=g384 Length=207
MDDDQQFCLRWNNHQSTLISVFDTLLESNTLVDCTLAAEGKFLKAHKVVLSACSPYFATL
LSQQYDKHPIFILKDVKFQELRAMMDYMYRGEVNISQDQLAALLKAAESLQIKGLSDSRG
GSSNNNSTNAPSQAHKSDAKSHVPAPPKASGLTIENKRPLLRTDFDADISGSREGSVSPS
TRKRKKVNQRRKSLIEANNLLDNHDQH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g384.t8 CDD cd18315 BTB_POZ_BAB-like 31 114 1.9489E-41
5 g384.t8 Gene3D G3DSA:3.30.710.10 Potassium Channel Kv1.1; Chain A 8 156 1.2E-34
8 g384.t8 MobiDBLite mobidb-lite consensus disorder prediction 115 207 -
9 g384.t8 MobiDBLite mobidb-lite consensus disorder prediction 115 136 -
2 g384.t8 PANTHER PTHR23110:SF78 LONGITUDINALS LACKING PROTEIN, ISOFORMS F/I/K/T 1 207 9.4E-95
3 g384.t8 PANTHER PTHR23110 BTB DOMAIN TRANSCRIPTION FACTOR 1 207 9.4E-95
1 g384.t8 Pfam PF00651 BTB/POZ domain 22 117 5.3E-26
10 g384.t8 ProSiteProfiles PS50097 BTB domain profile. 32 97 21.181
7 g384.t8 SMART SM00225 BTB_4 32 127 2.8E-23
4 g384.t8 SUPERFAMILY SSF54695 POZ domain 7 116 4.03E-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