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 g11266 g11266.t1 TTS g11266.t1 15199752 15199752
chr_1 g11266 g11266.t1 isoform g11266.t1 15199867 15201424
chr_1 g11266 g11266.t1 exon g11266.t1.exon1 15199867 15200007
chr_1 g11266 g11266.t1 cds g11266.t1.CDS1 15199867 15200007
chr_1 g11266 g11266.t1 exon g11266.t1.exon2 15200123 15200170
chr_1 g11266 g11266.t1 cds g11266.t1.CDS2 15200123 15200170
chr_1 g11266 g11266.t1 exon g11266.t1.exon3 15200472 15200495
chr_1 g11266 g11266.t1 cds g11266.t1.CDS3 15200472 15200495
chr_1 g11266 g11266.t1 exon g11266.t1.exon4 15200580 15200712
chr_1 g11266 g11266.t1 cds g11266.t1.CDS4 15200580 15200712
chr_1 g11266 g11266.t1 exon g11266.t1.exon5 15200826 15200986
chr_1 g11266 g11266.t1 cds g11266.t1.CDS5 15200826 15200986
chr_1 g11266 g11266.t1 exon g11266.t1.exon6 15201071 15201424
chr_1 g11266 g11266.t1 cds g11266.t1.CDS6 15201071 15201424
chr_1 g11266 g11266.t1 TSS g11266.t1 15201830 15201830

Sequences

>g11266.t1 Gene=g11266 Length=861
ATGCTTGAGGAAACAATTGAAGAAGAGACAACAATTAGTGTGACGTTGCCGATACCGACA
CGCAGAGAGAGTGTAATAATTACTACGCCACAAGCGATTATCGATGAAAAAGAAGAGTAT
TCAGCTGAACTAACAATTGGCAGTAGCAGTAGCAATAAGGCTGTTAGTTTTGAGGATGAA
AGTTCTATTCCAATGATTGCCACACCAGCTACAGAAGAAAAAAAGAAAAAGAAGAAAGAA
TTAGTTTCAACACCTGTTGTAGAAATCGATCCAACACAAGAAGCTGTCGAGAAAGCAACG
GGCTTAAAAATTACTGGCGGATCTGACTTGAAAATGCCTATCACAATCTTTCATGTAAAA
GAGAATTCAAAAGCGAAGCGCGTCGGACTAAAATTGGGCGATTCAATTGTAATGATTGAT
GGTAAGGACACGAGTATGATGACATTAAAAGAGGCAAATGAGGCATTGTTGCACGCAACG
AAGGCAATTCGTAGCTTTAAATTGGGCGTTATAAGATTCAATGATGACGAAGCTACAAAG
GATGATTCGCCTTTTGTTGAGGAAGTTGTGATGGAGGGAAATCCAAGAGCACCACGATTT
CATATTGAACAGCAACCTGAACCACCACATGAAGCTTATATTCAACGTCCGGAACGAAAA
GCGTGGCATCCAATCATGTGGCCACATCCTGAATATTTTTTGCCAGAAAATTATCACGAA
GAACTGCCCCATAAGCGAGTCGTTCGTAATGTGAGAAAATTGCTAGAGTCAAAACCTTCA
AAAATTGAATTAGAGAATCTTTTTACTTCGTTGCCAAGAGGTTCACGCCCAAAACGCAAT
TACAATGATGATAGTGATTAA

>g11266.t1 Gene=g11266 Length=286
MLEETIEEETTISVTLPIPTRRESVIITTPQAIIDEKEEYSAELTIGSSSSNKAVSFEDE
SSIPMIATPATEEKKKKKKELVSTPVVEIDPTQEAVEKATGLKITGGSDLKMPITIFHVK
ENSKAKRVGLKLGDSIVMIDGKDTSMMTLKEANEALLHATKAIRSFKLGVIRFNDDEATK
DDSPFVEEVVMEGNPRAPRFHIEQQPEPPHEAYIQRPERKAWHPIMWPHPEYFLPENYHE
ELPHKRVVRNVRKLLESKPSKIELENLFTSLPRGSRPKRNYNDDSD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g11266.t1 CDD cd00992 PDZ_signaling 101 164 0.0000000
4 g11266.t1 Gene3D G3DSA:2.30.42.10 - 89 170 0.0000000
1 g11266.t1 Pfam PF00595 PDZ domain 99 161 0.0000000
5 g11266.t1 ProSiteProfiles PS50106 PDZ domain profile. 86 164 12.0240000
3 g11266.t1 SMART SM00228 pdz_new 98 174 0.0000037
2 g11266.t1 SUPERFAMILY SSF50156 PDZ domain-like 100 161 0.0000000

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