Gene loci information

Transcript annotation

  • This transcript has been annotated as Homeobox protein extradenticle.

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_1 g13158 g13158.t6 TTS g13158.t6 28285238 28285238
chr_1 g13158 g13158.t6 isoform g13158.t6 28286039 28287831
chr_1 g13158 g13158.t6 exon g13158.t6.exon1 28286039 28286133
chr_1 g13158 g13158.t6 exon g13158.t6.exon2 28286220 28286405
chr_1 g13158 g13158.t6 cds g13158.t6.CDS1 28286248 28286405
chr_1 g13158 g13158.t6 exon g13158.t6.exon3 28286521 28286953
chr_1 g13158 g13158.t6 cds g13158.t6.CDS2 28286521 28286920
chr_1 g13158 g13158.t6 exon g13158.t6.exon4 28287770 28287831
chr_1 g13158 g13158.t6 TSS g13158.t6 28287918 28287918

Sequences

>g13158.t6 Gene=g13158 Length=776
TTTATATTATTTTGCGCAAAATAGTATTAAAGTGACACAAATCATAAAGAGTTCGTTAAA
AAGTGTCTAAAAGCAGCAACTTGCAGGCCGAATAAATGGAAGATCCAAATCGTATGATGG
CTCATGCAGCATCAAATCCTTCATACGCACAGCCATATGGTATGCCAAGTGATTCGCAAT
CGGTTGGTGATGACCCACGAAAGCAGGACATTGGTGAAATTCTTCAACAAATTATGAACA
TCACTGATCAATCACTTGATGAAGCACAAGCTCGAAAGCACACACTTAATTGTCATCGCA
TGAAGCCGGTTCTTTTTGCAGTGCTCTGTGAGATCAAGGAGAAAACAGTATTGTCATTAC
GCAATACTCAAGAGGAAGAACCTCCAGATCCTCAACTCATGCGTTTAGATAACATGCTTA
TTGCAGAAGGTGTTGCTGGTCCCGAAAAAGGCGGCGGTGCAGGAGCAGCAGCTTCTGCTT
CAGCGGCCGCATCAGATTCCCCAAAGAGGACTTTGGTGACATGGGCAGTGGTCAGGACAA
TGCTATTGAGCATTCTGACTACCGCGCCAAATTGGCTCAAATTCGTCAAATTTATCATCA
AGAACTCGAAAAATATGAACAAGCATGCAGTGAATTTACAACACACGTTATGAATCTGCT
ACGTGAACAGAGTAGAACACGCCCCATTACACCGAAAGAAATTGAACGAATGGTACAGAT
TATTCACAAGAAATTCAGCTCGATTCAAATGCAGTTAAAACAATCTACTTGCGAAG

>g13158.t6 Gene=g13158 Length=185
MEDPNRMMAHAASNPSYAQPYGMPSDSQSVGDDPRKQDIGEILQQIMNITDQSLDEAQAR
KHTLNCHRMKPVLFAVLCEIKEKTVLSLRNTQEEEPPDPQLMRLDNMLIAEGVAGPEKGG
GAGAAASASAAASDSPKRTLVTWAVVRTMLLSILTTAPNWLKFVKFIIKNSKNMNKHAVN
LQHTL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
4 g13158.t6 MobiDBLite mobidb-lite consensus disorder prediction 1 33 -
2 g13158.t6 PANTHER PTHR11850:SF50 PRE-B-CELL LEUKEMIA TRANSCRIPTION FACTOR 2 15 136 2.6E-58
3 g13158.t6 PANTHER PTHR11850 HOMEOBOX PROTEIN TRANSCRIPTION FACTORS 15 136 2.6E-58
1 g13158.t6 Pfam PF03792 PBC domain 36 129 2.3E-40

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:0005634 nucleus CC
GO:0003700 DNA-binding transcription factor activity 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