General information for g8373.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Staphylococcal nuclease domain-containing protein 1.
Parent gene
- The parent gene g8373 is located on chr_2: 30064065..30066207 (- 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 | g8373 | g8373.t2 | isoform | g8373.t2 | 30060631 | 30062397 |
| chr_2 | g8373 | g8373.t2 | exon | g8373.t2.exon1 | 30060631 | 30061166 |
| chr_2 | g8373 | g8373.t2 | TTS | g8373.t2 | 30060757 | 30060757 |
| chr_2 | g8373 | g8373.t2 | cds | g8373.t2.CDS1 | 30061136 | 30061166 |
| chr_2 | g8373 | g8373.t2 | exon | g8373.t2.exon2 | 30061229 | 30061299 |
| chr_2 | g8373 | g8373.t2 | cds | g8373.t2.CDS2 | 30061229 | 30061299 |
| chr_2 | g8373 | g8373.t2 | exon | g8373.t2.exon3 | 30061565 | 30061688 |
| chr_2 | g8373 | g8373.t2 | cds | g8373.t2.CDS3 | 30061565 | 30061688 |
| chr_2 | g8373 | g8373.t2 | exon | g8373.t2.exon4 | 30061753 | 30061934 |
| chr_2 | g8373 | g8373.t2 | cds | g8373.t2.CDS4 | 30061753 | 30061934 |
| chr_2 | g8373 | g8373.t2 | exon | g8373.t2.exon5 | 30062323 | 30062397 |
| chr_2 | g8373 | g8373.t2 | cds | g8373.t2.CDS5 | 30062323 | 30062397 |
| chr_2 | g8373 | g8373.t2 | TSS | g8373.t2 | NA | NA |
Sequences
>g8373.t2 Gene=g8373 Length=988
TGGTATCGTGCTAAAGTTATAAAAGTTGATAAAACTCAAGCAACGATCAAATACATCGAT
TATGGTAATACTGAGACCGTTCCAACAACTCGCCTCGCTGTTCTTCCTCCTGCCTTTACA
TCTGATAGTGCTTTTGCAACTGAATATGCACTTGCATGGGCTGTTCTTCCACCTGATGAA
GAAGATAAGATTGAAGCTTATAAGACATTCGCTCAAGATGTTCTCAACAGAACACTCAAT
TTGAATGTTGAGTTTGTAAACAATGGTCTCCCGAATGCTACATTATTTGATCCGAAAACA
AAGGCCGATATTGGAAAGGGCTTGGTTCAAGATGGTTTTATCATTTGTGAAAGACGTCCT
GGAAGAAGATTTGCTAAGATTGTAAATGAATACAAGGAATTGGAACAACAAGCTCGCAAA
TCTCACATTGGAATTTGGAAATACGGCGATATTACTGAAGATAATGCTGTTGAGTTTGGT
TAAATCATTCATTCATTCATAATTGCAGAAACATTCTTTTTGCATCACGATTTTTTTTAA
AATTTCTTATTATATAAAAAGTTAAATTTTTTTATGATGATGACGACTACACACATTGAC
GCCTCTTTTTATTTCTTCCTGTTTATTATGGTAAATGGATAATCTTAAGCATCTTCCACG
AGAAAAAGTATAATCACGCATTTTTTATTGCTGTGTGTGTGGATAGATTGAATTAAATGA
ATAAATCAAACCATTTTTAATTAAAATATTACACACATTACATTATGATTTTGCTTCAAA
GTTCATTTAAATAATTTCTATTAATGAATTAAATATATTATATAAACAATAATAAAAGCC
AATATAGAATTTTTCAAATTGGATTAAATTTGTCTTTATAATTTTTACAGATTTATCATC
GACATCTCTTGCATTCTTCTACCTACATCTATTCGAATTTTTTAAAATTAATCGTAACGA
CTTTTTTATTTTAAATTTTCAATAAAAA
>g8373.t2 Gene=g8373 Length=160
WYRAKVIKVDKTQATIKYIDYGNTETVPTTRLAVLPPAFTSDSAFATEYALAWAVLPPDE
EDKIEAYKTFAQDVLNRTLNLNVEFVNNGLPNATLFDPKTKADIGKGLVQDGFIICERRP
GRRFAKIVNEYKELEQQARKSHIGIWKYGDITEDNAVEFG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g8373.t2 | CDD | cd04508 | TUDOR | 1 | 32 | 0.000 |
| 5 | g8373.t2 | Gene3D | G3DSA:2.30.30.140 | - | 1 | 43 | 0.000 |
| 6 | g8373.t2 | Gene3D | G3DSA:2.40.50.90 | - | 44 | 153 | 0.000 |
| 2 | g8373.t2 | PANTHER | PTHR12302:SF2 | STAPHYLOCOCCAL NUCLEASE DOMAIN-CONTAINING PROTEIN 1 | 1 | 154 | 0.000 |
| 3 | g8373.t2 | PANTHER | PTHR12302 | EBNA2 BINDING PROTEIN P100 | 1 | 154 | 0.000 |
| 1 | g8373.t2 | Pfam | PF00567 | Tudor domain | 1 | 52 | 0.000 |
| 7 | g8373.t2 | ProSiteProfiles | PS50304 | Tudor domain profile. | 1 | 42 | 13.827 |
| 4 | g8373.t2 | SUPERFAMILY | SSF50199 | Staphylococcal nuclease | 11 | 154 | 0.000 |
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 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.
