General information for g8924.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Probable cGMP 3’,5’-cyclic phosphodiesterase subunit delta.
Parent gene
- The parent gene g8924 is located on chr_2: 33887247..33888064 (+ 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 | g8924 | g8924.t3 | TSS | g8924.t3 | 33887204 | 33887204 |
| chr_2 | g8924 | g8924.t3 | isoform | g8924.t3 | 33887247 | 33888064 |
| chr_2 | g8924 | g8924.t3 | exon | g8924.t3.exon1 | 33887247 | 33887472 |
| chr_2 | g8924 | g8924.t3 | cds | g8924.t3.CDS1 | 33887247 | 33887472 |
| chr_2 | g8924 | g8924.t3 | exon | g8924.t3.exon2 | 33887532 | 33887739 |
| chr_2 | g8924 | g8924.t3 | cds | g8924.t3.CDS2 | 33887532 | 33887737 |
| chr_2 | g8924 | g8924.t3 | TTS | g8924.t3 | 33887767 | 33887767 |
| chr_2 | g8924 | g8924.t3 | exon | g8924.t3.exon3 | 33887803 | 33888064 |
Sequences
>g8924.t3 Gene=g8924 Length=696
ATGTCAAAAGCGGAAGGTTTTCAAATAAATTGGATCAAATTGAGAAATGAGGAAACAAAT
GAGATATTTTGGCAAGAAGCAAAAGATTTTTCAGATCAATCGCAAATTCACGAAATCACT
TTGCCGACTTGCATTTTAGACATGAAAGCTGTTTCTCGCGAACTTTCTTTCTCAACTGTA
GAAGAATTAAAGAATTTTAGATTAGTACACACTGCTAAATTTAAAGGAAAATTATTAGAA
CAAATGAATTTTTCAATGGGACCAGTGAAAAAAGGAACGTCAAATGTTTGGATAAGCAGT
TTTATCGCTGCACCTGAATCACAGATGATGCCAGCTAAAGTATTAAATGGAAAAGTCTGT
ATAGAAACTGATTTTTATGATGATACAGAAAAATTTGCAACTTCAGTCATTAAACTGTTT
TATTCACCTTAATTAGTTTTTAGCGTTCAAGTGGTGCGTAGTTGAGGAGCTTCTCAATTA
AATCGACATGACCTAGAAGCATTCGTCTACAACAATAGCGTTTAAGTCCTAAAGCATCAA
GAGCGTCACTAAACAATAAATATTTTGATTATTTAGAAAAGCATGTGAAAAAAAATATTA
CCCTTCTGTATATTCTGCTTGTAATAATCCTAAATATGCTTCCCATTTATTTCCTATGAC
TTTTCCGCAAGTGAAACAACGAATTGGAATTATCAT
>g8924.t3 Gene=g8924 Length=143
MSKAEGFQINWIKLRNEETNEIFWQEAKDFSDQSQIHEITLPTCILDMKAVSRELSFSTV
EELKNFRLVHTAKFKGKLLEQMNFSMGPVKKGTSNVWISSFIAAPESQMMPAKVLNGKVC
IETDFYDDTEKFATSVIKLFYSP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g8924.t3 | Gene3D | G3DSA:2.70.50.40 | E set domains | 1 | 142 | 0 |
| 2 | g8924.t3 | PANTHER | PTHR12976 | RETINAL ROD RHODOPSIN-SENSITIVE CGMP 3’,5’-CYCLIC PHOSPHODIESTERASE DELTA-SUBUNIT | 5 | 134 | 0 |
| 1 | g8924.t3 | Pfam | PF05351 | GMP-PDE, delta subunit | 4 | 141 | 0 |
| 3 | g8924.t3 | SUPERFAMILY | SSF81296 | E set domains | 5 | 141 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K13758 (retinal rod rhodopsin-sensitive cGMP 3’,5’-cyclic phosphodiesterase subunit delta)
Pathway
- This transcript belongs to the following pathways
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.
