General information for g6867.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g6867 is located on chr_2: 19352333..19353849 (+ strand)
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 | g6867 | g6867.t1 | isoform | g6867.t1 | 19352333 | 19353849 |
| chr_2 | g6867 | g6867.t1 | exon | g6867.t1.exon1 | 19352333 | 19352420 |
| chr_2 | g6867 | g6867.t1 | cds | g6867.t1.CDS1 | 19352333 | 19352420 |
| chr_2 | g6867 | g6867.t1 | exon | g6867.t1.exon2 | 19352493 | 19352613 |
| chr_2 | g6867 | g6867.t1 | cds | g6867.t1.CDS2 | 19352493 | 19352613 |
| chr_2 | g6867 | g6867.t1 | exon | g6867.t1.exon3 | 19352682 | 19352737 |
| chr_2 | g6867 | g6867.t1 | cds | g6867.t1.CDS3 | 19352682 | 19352737 |
| chr_2 | g6867 | g6867.t1 | exon | g6867.t1.exon4 | 19353326 | 19353384 |
| chr_2 | g6867 | g6867.t1 | cds | g6867.t1.CDS4 | 19353326 | 19353384 |
| chr_2 | g6867 | g6867.t1 | exon | g6867.t1.exon5 | 19353451 | 19353509 |
| chr_2 | g6867 | g6867.t1 | cds | g6867.t1.CDS5 | 19353451 | 19353509 |
| chr_2 | g6867 | g6867.t1 | exon | g6867.t1.exon6 | 19353585 | 19353849 |
| chr_2 | g6867 | g6867.t1 | cds | g6867.t1.CDS6 | 19353585 | 19353849 |
| chr_2 | g6867 | g6867.t1 | TSS | g6867.t1 | NA | NA |
| chr_2 | g6867 | g6867.t1 | TTS | g6867.t1 | NA | NA |
Sequences
>g6867.t1 Gene=g6867 Length=648
ATGAAAAATGACATTGCAGGTGGTGCAGATCAATTTGAGCCATTAACAATTATTGCTGTG
CGTCGTGTTGGTCTCGCTCGGCGTGCAGGTATTCGTGTTGGTGACGTTATAACAAAAATC
AATGATACACCTACCGACAATTTAACACTCTTGGAAGCACAATTGGAAATTCAAGAGTCC
GGAAGGCATTTGAAACTCTTCGTCAAAGGCGATGAAGACAAAGACAGTGATGATGAAAAT
GTTTGTGATTTCTATTTTAAACCACTCTCGCAAGCAGATTTGAAACTCATGGAATGGGAA
AGACGTCGAAAGAAGAAACGCGAGTTGAACATGTTACTGTATCAAGGATTTCCTTGGAAT
GACAGAAAGCGGCCAATTTACAAAGAATCGAATTGTTTCATGGTGCCGAGTACAGTGCTG
ATAAAACGCGAGAGAGAAATAAAGATGAAAGCGAGCAAAGAAGAATATTTGAGCAATTTG
CGTGAATTGGCAGCGCAAAGGGAAGAAGAAAGACGTCGACAGAAACAAATCGAGGAAGAA
GAGTCAACAGAGGAATTTGAAGCAATCGCAAGAGAAACGTCGACAGAGCAGAGCCTGCAT
GAGGAATTTAGCGAAATAATTAAGACAACAACGACAATTGAAAGTTGA
>g6867.t1 Gene=g6867 Length=215
MKNDIAGGADQFEPLTIIAVRRVGLARRAGIRVGDVITKINDTPTDNLTLLEAQLEIQES
GRHLKLFVKGDEDKDSDDENVCDFYFKPLSQADLKLMEWERRRKKKRELNMLLYQGFPWN
DRKRPIYKESNCFMVPSTVLIKREREIKMKASKEEYLSNLRELAAQREEERRRQKQIEEE
ESTEEFEAIARETSTEQSLHEEFSEIIKTTTTIES
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g6867.t1 | CDD | cd00992 | PDZ_signaling | 5 | 69 | 7.93582E-14 |
| 4 | g6867.t1 | Coils | Coil | Coil | 89 | 109 | - |
| 5 | g6867.t1 | Coils | Coil | Coil | 153 | 185 | - |
| 3 | g6867.t1 | Gene3D | G3DSA:2.30.42.10 | - | 4 | 81 | 2.5E-15 |
| 9 | g6867.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 169 | 215 | - |
| 8 | g6867.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 187 | 203 | - |
| 1 | g6867.t1 | Pfam | PF00595 | PDZ domain | 5 | 68 | 8.9E-10 |
| 10 | g6867.t1 | ProSiteProfiles | PS50106 | PDZ domain profile. | 1 | 72 | 10.617 |
| 7 | g6867.t1 | SMART | SM00228 | pdz_new | 2 | 72 | 4.3E-7 |
| 2 | g6867.t1 | SUPERFAMILY | SSF50156 | PDZ domain-like | 5 | 73 | 7.76E-14 |
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