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.t5 TTS g384.t5 3101929 3101929
chr_3 g384 g384.t5 isoform g384.t5 3102525 3117504
chr_3 g384 g384.t5 exon g384.t5.exon1 3102525 3103074
chr_3 g384 g384.t5 cds g384.t5.CDS1 3102866 3103074
chr_3 g384 g384.t5 exon g384.t5.exon2 3109230 3109289
chr_3 g384 g384.t5 cds g384.t5.CDS2 3109230 3109289
chr_3 g384 g384.t5 exon g384.t5.exon3 3109357 3109719
chr_3 g384 g384.t5 cds g384.t5.CDS3 3109357 3109719
chr_3 g384 g384.t5 exon g384.t5.exon4 3109800 3109959
chr_3 g384 g384.t5 cds g384.t5.CDS4 3109800 3109959
chr_3 g384 g384.t5 exon g384.t5.exon5 3110143 3110412
chr_3 g384 g384.t5 cds g384.t5.CDS5 3110143 3110412
chr_3 g384 g384.t5 exon g384.t5.exon6 3110485 3110782
chr_3 g384 g384.t5 cds g384.t5.CDS6 3110485 3110658
chr_3 g384 g384.t5 exon g384.t5.exon7 3117362 3117504
chr_3 g384 g384.t5 TSS g384.t5 3117507 3117507

Sequences

>g384.t5 Gene=g384 Length=1844
TGAGTTAAATTAGTTGAGGAGTAAAGACGCGTTTTTTGTGTGCTCGTATAAAAAAGACGC
CATTTTGAAAAAAATAATATTTAAAACCACGGAAAAATCAAGTATTAGATTTGTGATATT
AAATGAAGACTGTGCTAATTACGCAGATTCAACCTGAAAAGTGAACGAAGAGAGAATTCA
ACTATCACAAGAGCAGAACACAGAATAAAATAAATTTTTCCGTTATAACTCAAGCGACTC
AAAACTTAGGATCATCCCGCCTTCATCATGGATGATGATCAACAATTTTGTCTCCGATGG
AATAATCATCAAAGTACACTGATATCGGTATTTGACACTTTATTGGAAAGTAATACGCTC
GTCGATTGCACATTGGCGGCGGAAGGAAAATTTTTGAAAGCACATAAAGTCGTCTTATCA
GCATGTAGTCCATATTTTGCTACTTTGTTGTCACAACAGTATGATAAGCATCCAATTTTC
ATTCTAAAGGATGTGAAATTTCAAGAATTGCGTGCCATGATGGACTACATGTATCGTGGA
GAAGTAAACATTTCTCAAGATCAGTTGGCAGCTTTACTTAAGGCAGCCGAGTCTTTACAA
ATTAAAGGTCTCTCTGACAGCCGTGGAGGTAGCAGCAACAACAATTCCACTAATGCGCCA
TCTCAAGCACATAAGAGTGATGCAAAATCACATGTACCTGCACCACCAAAGGCTTCAGGC
TTAACAATAGAAAACAAAAGACCATTGCTGAGAACAGATTTTGATGCGGACATATCTGGC
TCTCGAGAAGGCTCCGTCTCACCATCGACACGAAAGCGTAAAAAAGTGAATCAGCGTCGT
AAGAGCTTAATCGAAGCAAATAATTTACTAGATAATCATGACCAGCACTCAAATTCCTCA
TCACATTCTAATAATCAGCAACAGTTATCAACCTCCGCTACCTCTGCACCTATAAACAAC
TTGTCCGTTACCAATACAAAAAAGACTGATCAAGACGGAAATAATCAGGAGCACGATCAT
GGTGATGACGAGAATGCACAGCCACAAAAGCGTTCAAAACATGATGATACGGACAATAAG
CAAGATTCGGAGTTGATGCTGGAACCGAAAAATGAATATGATGACGATGATGATGACGAA
AATGATGATAATGTTGAAGATTTGACAATGGATGATGAAATGTTGGAAGATTTAGAAGCA
GGGCCGAGTCACGGTGGTGAGGGATCTAGTCAAGGATATCATTGGCAAAATCAGGAAGGA
CAGGAATCATCTGGACAGCACAGAGACGCACAAGATGTCATGTGCGTTTTTTGCGCGAAA
GCTTTCAGTTCGAACCGTAACCGAAAGATTCATGAAGACTTTTATTGTAAACAAAATCCC
GATCGAAAATTCTATCAGTGTCTCTTTTGCCATTATCAATCGGCTCGAGAGATACGTGTC
AAGAAGCACATATTTATTGCTCATCCTGATCAATTTTTTAAAATTGAACATAAGTGCGGA
TAAACTTTTTTAGATTGATTTTTTTCTCTCTATATTTTAATATTAAAATGCTGCACGTTA
ACCAAAGAACAAACAACAGTATTTATCTACATGTTTCTTCTTTCCTTTTAAATTTTTTTT
TCGCTTCATTTTCTTGTTATGATTTTCTAATATTTTGAATTCAATGAAAACAAAATATTT
ATATATATTTTTAATAAATTAAATTACTTAAATGTGAATGTTGATAACTCTTTCAAACAA
AAAAAAAAAAAGTAATATTGTTTTAACCAAACCAAAAACTATTGCGAAACATTTGTGAGG
ATGATCTAATGCTCATATTTTCCTCCTTTTTGTTTATTTTTAGA

>g384.t5 Gene=g384 Length=411
MDDDQQFCLRWNNHQSTLISVFDTLLESNTLVDCTLAAEGKFLKAHKVVLSACSPYFATL
LSQQYDKHPIFILKDVKFQELRAMMDYMYRGEVNISQDQLAALLKAAESLQIKGLSDSRG
GSSNNNSTNAPSQAHKSDAKSHVPAPPKASGLTIENKRPLLRTDFDADISGSREGSVSPS
TRKRKKVNQRRKSLIEANNLLDNHDQHSNSSSHSNNQQQLSTSATSAPINNLSVTNTKKT
DQDGNNQEHDHGDDENAQPQKRSKHDDTDNKQDSELMLEPKNEYDDDDDDENDDNVEDLT
MDDEMLEDLEAGPSHGGEGSSQGYHWQNQEGQESSGQHRDAQDVMCVFCAKAFSSNRNRK
IHEDFYCKQNPDRKFYQCLFCHYQSAREIRVKKHIFIAHPDQFFKIEHKCG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g384.t5 CDD cd18315 BTB_POZ_BAB-like 31 114 2.51442E-39
6 g384.t5 Gene3D G3DSA:3.30.710.10 Potassium Channel Kv1.1; Chain A 8 156 6.4E-34
5 g384.t5 Gene3D G3DSA:3.30.160.60 Classic Zinc Finger 319 402 2.0E-5
11 g384.t5 MobiDBLite mobidb-lite consensus disorder prediction 115 190 -
15 g384.t5 MobiDBLite mobidb-lite consensus disorder prediction 115 136 -
10 g384.t5 MobiDBLite mobidb-lite consensus disorder prediction 205 241 -
12 g384.t5 MobiDBLite mobidb-lite consensus disorder prediction 205 291 -
14 g384.t5 MobiDBLite mobidb-lite consensus disorder prediction 242 279 -
9 g384.t5 MobiDBLite mobidb-lite consensus disorder prediction 312 338 -
13 g384.t5 MobiDBLite mobidb-lite consensus disorder prediction 320 338 -
2 g384.t5 PANTHER PTHR23110:SF78 LONGITUDINALS LACKING PROTEIN, ISOFORMS F/I/K/T 1 340 9.1E-96
3 g384.t5 PANTHER PTHR23110 BTB DOMAIN TRANSCRIPTION FACTOR 1 340 9.1E-96
1 g384.t5 Pfam PF00651 BTB/POZ domain 22 117 2.2E-25
16 g384.t5 ProSiteProfiles PS50097 BTB domain profile. 32 97 21.181
8 g384.t5 SMART SM00225 BTB_4 32 127 2.8E-23
4 g384.t5 SUPERFAMILY SSF54695 POZ domain 7 116 1.83E-29

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.

Raw TPM values