General information for g7495.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Structure-specific endonuclease subunit SLX1-like protein.
Parent gene
- The parent gene g7495 is located on chr_2: 23998297..23999276 (- 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 | g7495 | g7495.t3 | TTS | g7495.t3 | 23998111 | 23998111 |
| chr_2 | g7495 | g7495.t3 | isoform | g7495.t3 | 23998297 | 23999276 |
| chr_2 | g7495 | g7495.t3 | exon | g7495.t3.exon1 | 23998297 | 23998759 |
| chr_2 | g7495 | g7495.t3 | cds | g7495.t3.CDS1 | 23998297 | 23998746 |
| chr_2 | g7495 | g7495.t3 | exon | g7495.t3.exon2 | 23998818 | 23999276 |
| chr_2 | g7495 | g7495.t3 | TSS | g7495.t3 | 23999319 | 23999319 |
Sequences
>g7495.t3 Gene=g7495 Length=922
ATGGATGCTGTAACTGTGATTGATAACTTTTTTGGTGTTTATTTGCTTGTTAATAACAAT
GACAATCCAAAGTACAAGGGTAGATGTTATGTCGGTATGTAAATTTTTAAAAATATATTA
TGACATTTTAAATTTAAATGTGTATTCTATAGGTTTTACTGTAAATCCCACAAGAAGAAT
CACACAACATAATAGAGGAAAAAAATTCGGTGGCGCTAATCAAACTTCACGTATTCCAGG
ACCTTGGACAATGGTATTAATAGTTCACGACTTTCCTGATAATATTTCTGCACTTCGATT
TGAATGGTAAGAGAAGAATAAATAAAAATAAATATTTAAGTTTAAATAAATTAATTTTTA
TAGGGCTTGGCAAGAACCAAAGAACTCACGTCGCTTGAAAGTAATTGACAGTATTCAACG
ACGAAAACCCAATGAATCACATTTCAATTTTCATTTTAGAATTTTAACAGAAATGATTAA
TACACCACCATGGAATAGATTACCTTTAAAAATTCGATGGTTAGAGTCTGATTATTGTAT
TGACTTTCCTTCAGATCGTTTTCCAAAACACATGTCAATTAAACATGGTGCCATCAAAGC
TTTTAAAAAAACAGTCAGTCAAACACAAGAACAAAAAGAGCTGATGGATGCAGTAAGAAC
TCGTAAAGAATGTCATTTGTGTATGGAAAAAATTCAAAATCTTGACACAGATCGTGTTTT
ATGCATTAATCCACGATGTAAACTTGTAGCTCATACAAAATGTCTCGCGCGCATATGTTT
AGAACCAAACCACTATTTGCCTATAGCTGGTAAATGTCCTTTATGTGATTGTAACTTTTT
ATGGAATGATATAATTCGAAAGAAAAATGGATTTTCTGTTCCATTCGTTAATATCGATGA
CGAAGAGGAATTTGATATTTAA
>g7495.t3 Gene=g7495 Length=149
MINTPPWNRLPLKIRWLESDYCIDFPSDRFPKHMSIKHGAIKAFKKTVSQTQEQKELMDA
VRTRKECHLCMEKIQNLDTDRVLCINPRCKLVAHTKCLARICLEPNHYLPIAGKCPLCDC
NFLWNDIIRKKNGFSVPFVNIDDEEEFDI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g7495.t3 | Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain | 63 | 133 | 0 |
| 1 | g7495.t3 | PANTHER | PTHR20208:SF10 | STRUCTURE-SPECIFIC ENDONUCLEASE SUBUNIT SLX1 | 1 | 133 | 0 |
| 2 | g7495.t3 | PANTHER | PTHR20208 | STRUCTURE-SPECIFIC ENDONUCLEASE SUBUNIT SLX1 | 1 | 133 | 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 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