Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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 g12858 g12858.t4 TSS g12858.t4 26578820 26578820
chr_1 g12858 g12858.t4 isoform g12858.t4 26579506 26580702
chr_1 g12858 g12858.t4 exon g12858.t4.exon1 26579506 26580441
chr_1 g12858 g12858.t4 cds g12858.t4.CDS1 26579506 26580441
chr_1 g12858 g12858.t4 exon g12858.t4.exon2 26580576 26580702
chr_1 g12858 g12858.t4 cds g12858.t4.CDS2 26580576 26580587
chr_1 g12858 g12858.t4 TTS g12858.t4 26581702 26581702

Sequences

>g12858.t4 Gene=g12858 Length=1063
ATGTGTTATGATTCAGATGAAGTTAATAGTTATTCATTGGATGATATAAAAAGAGAAATT
AAGATAAAATGCAAGCCCAAATCTATGAATCCACAAATAAATGAAACTGAGGAGCAAAAT
GAGTTGAAACTTAAAGGATATTCTGAGGAATTGACAAAATTAAAAATTGAAAAACAGCAA
TTAATGTCAGAACTAAAAGCAGTGAAAACTTTAAATCAGCAACAAGAAACTTTAATAGGA
AAACATCGAGAACAAATTACAGTTTTATTAGCAAAACAATCAAAACAAGATAAAAAGATT
AACAAAGTTCAATATCTGATTTCAGAAAATGATAATTTGAAGACAGCAAATAAAAATGTA
ATTGCCCAAACTAGAAATTTAAAAGAGGAAAATCAAAATTTGGTAGCAGTAAATCAAAGG
CTAGAAGATAAAATTAAAAAATTGGAAGCAGAAGTTTTAACAATAAAAAGTCAAAATACA
GGACTTTTGATATCAGAAAATGTAAATTTAAAAAAGGAAGCACAAACCATGAAAAGTCAA
TTGGAAAACTTTAAATCAAAACTTCAAAAACAAGAAATATTGATCAAAAATCAACGAGAA
CACATTACAAGTTTACTTGCTTGTAAGAATAAGGACACAGTGGCTTCTAATCTAAAGAAA
ATCATTCGTGATTCAACTTTTAAAGATTTCACAATTAACGTCGGTAAATCATCATTTAAG
GTTCACAAAATGCTTTTTGCTGCTCATAGTTCAACATTGGCTGAAATTTTCAAAACTAAT
CCTGATGCACAAGAATTAAATCTTTGTGATATTCCTGAATCAACTTTTAAAGCGGTTCAT
AATTTTATCTATAATGAACAATTGCCAGATAATGTCAACCATTTTGAAGTTTTTGCTGCA
GCTGCTAAACTTAAAATTGATAATTTGGTTAAAATAAAAGCTAAATGAAAAATTAGCAAA
ACAACCTGAAAAATTGAAAAAGTTGATCGATTCAGCGCAAGCATTAAATGAATTGAAAAA
ACAATTTGAACAAAATTTTGAAGAGTTGTCAAATGATGATTAA

>g12858.t4 Gene=g12858 Length=315
MCYDSDEVNSYSLDDIKREIKIKCKPKSMNPQINETEEQNELKLKGYSEELTKLKIEKQQ
LMSELKAVKTLNQQQETLIGKHREQITVLLAKQSKQDKKINKVQYLISENDNLKTANKNV
IAQTRNLKEENQNLVAVNQRLEDKIKKLEAEVLTIKSQNTGLLISENVNLKKEAQTMKSQ
LENFKSKLQKQEILIKNQREHITSLLACKNKDTVASNLKKIIRDSTFKDFTINVGKSSFK
VHKMLFAAHSSTLAEIFKTNPDAQELNLCDIPESTFKAVHNFIYNEQLPDNVNHFEVFAA
AAKLKIDNLVKIKAK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g12858.t4 CDD cd18186 BTB_POZ_ZBTB_KLHL-like 229 304 2.78938E-13
7 g12858.t4 Coils Coil Coil 37 71 -
6 g12858.t4 Coils Coil Coil 110 158 -
5 g12858.t4 Coils Coil Coil 167 201 -
4 g12858.t4 Gene3D G3DSA:3.30.710.10 Potassium Channel Kv1.1; Chain A 195 315 1.1E-16
1 g12858.t4 Pfam PF00651 BTB/POZ domain 224 312 4.9E-13
8 g12858.t4 ProSiteProfiles PS50097 BTB domain profile. 228 288 11.812
3 g12858.t4 SMART SM00225 BTB_4 228 315 3.7E-8
2 g12858.t4 SUPERFAMILY SSF54695 POZ domain 213 312 8.83E-15

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