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.t1 TSS g12858.t1 26578820 26578820
chr_1 g12858 g12858.t1 isoform g12858.t1 26579506 26580702
chr_1 g12858 g12858.t1 exon g12858.t1.exon1 26579506 26580702
chr_1 g12858 g12858.t1 cds g12858.t1.CDS1 26579506 26580702
chr_1 g12858 g12858.t1 TTS g12858.t1 26581702 26581702

Sequences

>g12858.t1 Gene=g12858 Length=1197
ATGTGTTATGATTCAGATGAAGTTAATAGTTATTCATTGGATGATATAAAAAGAGAAATT
AAGATAAAATGCAAGCCCAAATCTATGAATCCACAAATAAATGAAACTGAGGAGCAAAAT
GAGTTGAAACTTAAAGGATATTCTGAGGAATTGACAAAATTAAAAATTGAAAAACAGCAA
TTAATGTCAGAACTAAAAGCAGTGAAAACTTTAAATCAGCAACAAGAAACTTTAATAGGA
AAACATCGAGAACAAATTACAGTTTTATTAGCAAAACAATCAAAACAAGATAAAAAGATT
AACAAAGTTCAATATCTGATTTCAGAAAATGATAATTTGAAGACAGCAAATAAAAATGTA
ATTGCCCAAACTAGAAATTTAAAAGAGGAAAATCAAAATTTGGTAGCAGTAAATCAAAGG
CTAGAAGATAAAATTAAAAAATTGGAAGCAGAAGTTTTAACAATAAAAAGTCAAAATACA
GGACTTTTGATATCAGAAAATGTAAATTTAAAAAAGGAAGCACAAACCATGAAAAGTCAA
TTGGAAAACTTTAAATCAAAACTTCAAAAACAAGAAATATTGATCAAAAATCAACGAGAA
CACATTACAAGTTTACTTGCTTGTAAGAATAAGGACACAGTGGCTTCTAATCTAAAGAAA
ATCATTCGTGATTCAACTTTTAAAGATTTCACAATTAACGTCGGTAAATCATCATTTAAG
GTTCACAAAATGCTTTTTGCTGCTCATAGTTCAACATTGGCTGAAATTTTCAAAACTAAT
CCTGATGCACAAGAATTAAATCTTTGTGATATTCCTGAATCAACTTTTAAAGCGGTTCAT
AATTTTATCTATAATGAACAATTGCCAGATAATGTCAACCATTTTGAAGTTTTTGCTGCA
GCTGCTAAACTTAAAATTGATAATTTGGTTAAAATAGTTTCTACACATATTTTGGCGAAT
ATTAATGAAGAAAATGCTTTTGAAATATTGACCATTGGTAATAAATTTGATCAGGATAAT
TTAAGAAAGAAAGCATTTGAGACCATTCAAGATAAAATTTTTCCTGATCGAAAGCTAAAT
GAAAAATTAGCAAAACAACCTGAAAAATTGAAAAAGTTGATCGATTCAGCGCAAGCATTA
AATGAATTGAAAAAACAATTTGAACAAAATTTTGAAGAGTTGTCAAATGATGATTAA

>g12858.t1 Gene=g12858 Length=398
MCYDSDEVNSYSLDDIKREIKIKCKPKSMNPQINETEEQNELKLKGYSEELTKLKIEKQQ
LMSELKAVKTLNQQQETLIGKHREQITVLLAKQSKQDKKINKVQYLISENDNLKTANKNV
IAQTRNLKEENQNLVAVNQRLEDKIKKLEAEVLTIKSQNTGLLISENVNLKKEAQTMKSQ
LENFKSKLQKQEILIKNQREHITSLLACKNKDTVASNLKKIIRDSTFKDFTINVGKSSFK
VHKMLFAAHSSTLAEIFKTNPDAQELNLCDIPESTFKAVHNFIYNEQLPDNVNHFEVFAA
AAKLKIDNLVKIVSTHILANINEENAFEILTIGNKFDQDNLRKKAFETIQDKIFPDRKLN
EKLAKQPEKLKKLIDSAQALNELKKQFEQNFEELSNDD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g12858.t1 CDD cd18186 BTB_POZ_ZBTB_KLHL-like 229 304 4.60359E-13
8 g12858.t1 Coils Coil Coil 37 71 -
7 g12858.t1 Coils Coil Coil 110 158 -
5 g12858.t1 Coils Coil Coil 167 201 -
6 g12858.t1 Coils Coil Coil 370 397 -
4 g12858.t1 Gene3D G3DSA:3.30.710.10 Potassium Channel Kv1.1; Chain A 195 352 3.8E-25
2 g12858.t1 PANTHER PTHR24410 HL07962P-RELATED 207 351 9.2E-12
1 g12858.t1 Pfam PF00651 BTB/POZ domain 224 318 7.0E-14
11 g12858.t1 ProSiteProfiles PS50097 BTB domain profile. 228 288 11.812
10 g12858.t1 SMART SM00225 BTB_4 228 321 2.3E-13
3 g12858.t1 SUPERFAMILY SSF54695 POZ domain 213 320 1.79E-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