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_2 g6200 g6200.t13 TTS g6200.t13 15239166 15239166
chr_2 g6200 g6200.t13 isoform g6200.t13 15239265 15243048
chr_2 g6200 g6200.t13 exon g6200.t13.exon1 15239265 15239333
chr_2 g6200 g6200.t13 cds g6200.t13.CDS1 15239314 15239333
chr_2 g6200 g6200.t13 exon g6200.t13.exon2 15239474 15239540
chr_2 g6200 g6200.t13 cds g6200.t13.CDS2 15239474 15239540
chr_2 g6200 g6200.t13 exon g6200.t13.exon3 15240729 15240823
chr_2 g6200 g6200.t13 cds g6200.t13.CDS3 15240729 15240823
chr_2 g6200 g6200.t13 exon g6200.t13.exon4 15240957 15241075
chr_2 g6200 g6200.t13 cds g6200.t13.CDS4 15240957 15241075
chr_2 g6200 g6200.t13 exon g6200.t13.exon5 15241414 15241568
chr_2 g6200 g6200.t13 cds g6200.t13.CDS5 15241414 15241568
chr_2 g6200 g6200.t13 exon g6200.t13.exon6 15242887 15243048
chr_2 g6200 g6200.t13 cds g6200.t13.CDS6 15242887 15243048
chr_2 g6200 g6200.t13 TSS g6200.t13 15243225 15243225

Sequences

>g6200.t13 Gene=g6200 Length=667
ATGCCTCGTGTTACATTTAAAATTGAAAAACAGCCGCCAATGACGACAACAACTGGCAAT
CAAGCATCAGATAATTTAGAGGTATTTCATGGAATTGGAAATACGCTTGGATTTGATTTA
ACTGGTGGAATTGATTTTTCTATGCCAATTACTATCTTTCATGTCAAGGAAGGAAGCAGA
GCAGATAATGCAGGCTTAAAGTTAGGAGATTCGATTGTTACAATCAATAATGTCGATACA
ACCAACATGACATTACAAGAAGCAAACAATGTCCTTGAACAAGCATCACAGCAAGACGTG
AAATTGGGTGTCATCAAATTTGATGAAGTTGATGAATCAAAACCAGAGAAGAAGCCAACA
ATTCATGAAATTCTACTTAAAGGTAAACGTGCTAATCCACGATTGCCCTTCGAAAATCAA
CTCAATCTTCCTCGTGAAGCATATATTGAAAAGGCTGAAAAGAAAAGTTGGCATCCAATT
GTATGGCCTCATCCAGAAAGAATTCAAACAGATATGTTAGCTACACAAAAGGAATTACCA
CACAAGCGTGTTATTCGAAATTTGCGACGATTATTGACTGAAATTGCTGATAAACCAGAA
AAAAGAAGAAGAAATTGAAGAAACAGCAACAGAAGATGAAGAAGAGGAAGAAGAAGAAGA
AGAGTAA

>g6200.t13 Gene=g6200 Length=205
MPRVTFKIEKQPPMTTTTGNQASDNLEVFHGIGNTLGFDLTGGIDFSMPITIFHVKEGSR
ADNAGLKLGDSIVTINNVDTTNMTLQEANNVLEQASQQDVKLGVIKFDEVDESKPEKKPT
IHEILLKGKRANPRLPFENQLNLPREAYIEKAEKKSWHPIVWPHPERIQTDMLATQKELP
HKRVIRNLRRLLTEIADKPEKRRRN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g6200.t13 CDD cd00992 PDZ_signaling 33 105 6.38262E-16
6 g6200.t13 Coils Coil Coil 78 98 -
5 g6200.t13 Gene3D G3DSA:2.30.42.10 - 21 121 4.4E-19
2 g6200.t13 PANTHER PTHR24214 PDZ AND LIM DOMAIN PROTEIN ZASP 33 179 1.0E-19
3 g6200.t13 PANTHER PTHR24214:SF56 Z BAND ALTERNATIVELY SPLICED PDZ-MOTIF PROTEIN 67, ISOFORM G 33 179 1.0E-19
1 g6200.t13 Pfam PF00595 PDZ domain 32 104 2.3E-12
9 g6200.t13 ProSiteProfiles PS50106 PDZ domain profile. 25 97 13.612
8 g6200.t13 SMART SM00228 pdz_new 34 108 1.7E-10
4 g6200.t13 SUPERFAMILY SSF50156 PDZ domain-like 26 106 4.21E-19

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