General information for g13841.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g13841 is located on chr_1: 32745106..32747426 (+ 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_1 | g13841 | g13841.t2 | TSS | g13841.t2 | 32745036 | 32745036 |
| chr_1 | g13841 | g13841.t2 | isoform | g13841.t2 | 32745106 | 32745977 |
| chr_1 | g13841 | g13841.t2 | exon | g13841.t2.exon1 | 32745106 | 32745977 |
| chr_1 | g13841 | g13841.t2 | cds | g13841.t2.CDS1 | 32745651 | 32745977 |
| chr_1 | g13841 | g13841.t2 | TTS | g13841.t2 | 32746832 | 32746832 |
Sequences
>g13841.t2 Gene=g13841 Length=872
ATGTATCAATTACAAACTCGTATAAACGATATTCTTAATTATCCATTAGTGGAACGTATC
AATCAGTTGCGGTTTTGCATCGAAACAGCTCCTATCAAAGATTTACAAGCATTTTATCCA
ACATTAGTTTCAAACATTTTCGGCATTAATCAAAATCAGATCGGATGGGGCTTGAGAACA
GTAACACAAGCAAGTGCAGAATATTACCTACTTTACAACTTTTTCAATCCTCACGAAATA
TTTTTTCGACTAATTTATCGCCTTCAATCTTGCGGGTTTGTGAATAAATATGAAATTCCA
TTTCCTGAACTTCCGAAATATTTTATTCGAATGTTGGAAAGCGGAAGAGTTGATGGATTT
TATACAAAACTCATAAGTACTGAGCATTTTCAACCTAAAATGCTTTCATTGAGTAAGTAT
TTCGGTAATATGTCATAAATTGATGAAATTAATGAGTCATACAAATTTCAGATGCTTTTG
ACTACTTCATTCTACATTTTGCTATTCATGGAGTAAAAAACTTACACAAAATATCACCTG
CTGCAATGGCTGTCAACAATGAGAACACAATGACTGTATATTTCAGCCTTGCTGCTGATT
ACTTATGCAATTTTCTTCCAAATGATCCAAATTCAATTGTCTATCCGCAAATTGATTTGT
CTCCAGTAAAAAATACAGCTCCCGTTCAAATTCCAATGGCACCGATCCGACAACCTAAAT
ATTTGCTTCTTTCATCACTCTCTCATCAAATTCAAAATCCATCAAATCCTCCTAGAGATA
TTCGATTTCAAGAAGCAGCAACAAGTAGAAGCTCAAGCAATTGGCGTAGTGAAACTATTT
TAATGTTTTTTATTGATTGCTGGCTAAGATAT
>g13841.t2 Gene=g13841 Length=109
MAVNNENTMTVYFSLAADYLCNFLPNDPNSIVYPQIDLSPVKNTAPVQIPMAPIRQPKYL
LLSSLSHQIQNPSNPPRDIRFQEAATSRSSSNWRSETILMFFIDCWLRY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g13841.t2 | Pfam | PF14724 | Mitochondrial-associated sphingomyelin phosphodiesterase | 7 | 108 | 5.2e-06 |
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:0050290 | sphingomyelin phosphodiesterase D activity | 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.
