General information for g13917.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Endonuclease G, mitochondrial.
Parent gene
- The parent gene g13917 is located on chr_1: 33396746..33397783 (+ 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 | g13917 | g13917.t3 | TSS | g13917.t3 | 33395561 | 33395561 |
| chr_1 | g13917 | g13917.t3 | isoform | g13917.t3 | 33395622 | 33396746 |
| chr_1 | g13917 | g13917.t3 | exon | g13917.t3.exon1 | 33395622 | 33395729 |
| chr_1 | g13917 | g13917.t3 | cds | g13917.t3.CDS1 | 33395622 | 33395729 |
| chr_1 | g13917 | g13917.t3 | exon | g13917.t3.exon2 | 33395785 | 33396105 |
| chr_1 | g13917 | g13917.t3 | cds | g13917.t3.CDS2 | 33395785 | 33396105 |
| chr_1 | g13917 | g13917.t3 | exon | g13917.t3.exon3 | 33396169 | 33396746 |
| chr_1 | g13917 | g13917.t3 | cds | g13917.t3.CDS3 | 33396169 | 33396351 |
| chr_1 | g13917 | g13917.t3 | TTS | g13917.t3 | 33396795 | 33396795 |
Sequences
>g13917.t3 Gene=g13917 Length=1007
ATGAGACTACACGCAGTAAACACAGTGAAAAAATTAGTGTTAATATCAGGAATTAGTGGA
CTTTCATATTACGCTGGACGTCAATCAATAGAAAATAAATTAGAATCTTGCCAAAAAGAG
ACTAAAAATTTATTAAGTAAACCAGCACTGCCTATATTCAGCACAGTATCAGCTGCTGCT
TTAATTCCTCGAAATGAAACCTTCGATAAGCCTGCCATAATTCCTAAGGAAAACAGAATA
GTGCAAATTATGAGATATGGATTCCCTTCTCTCGATAATGTTCGCTCATTTGATGATTTT
GTATTATCATATGATCGGAGAATGCGAACTGCAGCTTGGGTTTTTGAACATTTGACTGCT
GAAAGTGTAAAGCATAACGATGCAGTCGATAGAGCGAAATGTGATTTTAAGCCAGATGAA
AGCATACATCCATTCTTTAGGGCGGATAATTCAGATTATAAAAAATCGGGGTATGATAGG
GGACATTTAGCTGCAGCTGGAAATCACAAAAGAGAACAGCGTCATATAGAGCAAACATTT
TATTTAAGTAATATAAGTCCTCAAGTGGGAGTTGGATTCAATAGAGATAGCTGGAATAGA
TTAGAAAGGTAAGTATTATATTTGCGTAACCTGTTTCAATTACTAATAAATTATTACACA
GATATGTAAGAAAGCTAACCAAAACCTTTAGAAATGTTTATGTTTGCACTGGACCACTTT
ATCTTCCTCGAAAGGAAGCTAATGGGAAGCTTTATGTTAAATATGAAGTTATTGGGTCAA
GTAACGTTGCAGTGCCAACTCATTTTTTTAAAGTAGTCGTGTGTGAAGATGCTGATGGAA
AATTAGAATTGGAATCATATGTAATGCCTAATGAAGTAATTTCGGATGATACTCCTCTTG
AAAATTTTAGAGTTCCACCTGAAAGCATCGAACGAGCAGCAGGATTGCTGTTTTTTGATA
AAATTAATAGGAAAATGCTCAGTAAAATAAATGGAAAAAAATTATAG
>g13917.t3 Gene=g13917 Length=203
MRLHAVNTVKKLVLISGISGLSYYAGRQSIENKLESCQKETKNLLSKPALPIFSTVSAAA
LIPRNETFDKPAIIPKENRIVQIMRYGFPSLDNVRSFDDFVLSYDRRMRTAAWVFEHLTA
ESVKHNDAVDRAKCDFKPDESIHPFFRADNSDYKKSGYDRGHLAAAGNHKREQRHIEQTF
YLSNISPQVGVGFNRDSWNRLER
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g13917.t3 | Coils | Coil | Coil | 27 | 47 | - |
| 8 | g13917.t3 | Gene3D | G3DSA:3.40.570.10 | Extracellular Endonuclease | 64 | 203 | 7.8E-56 |
| 2 | g13917.t3 | PANTHER | PTHR13966 | ENDONUCLEASE RELATED | 70 | 203 | 1.1E-47 |
| 3 | g13917.t3 | PANTHER | PTHR13966:SF5 | ENDONUCLEASE G, MITOCHONDRIAL | 70 | 203 | 1.1E-47 |
| 1 | g13917.t3 | Pfam | PF01223 | DNA/RNA non-specific endonuclease | 83 | 202 | 2.8E-31 |
| 7 | g13917.t3 | ProSitePatterns | PS01070 | DNA/RNA non-specific endonucleases active site. | 159 | 167 | - |
| 6 | g13917.t3 | SMART | SM00892 | Endonuclease_NS_2 | 96 | 203 | 4.7E-4 |
| 5 | g13917.t3 | SMART | SM00477 | endoplus | 97 | 203 | 3.7E-8 |
| 4 | g13917.t3 | SUPERFAMILY | SSF54060 | His-Me finger endonucleases | 80 | 203 | 5.65E-36 |
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:0046872 | metal ion binding | MF |
| GO:0016787 | hydrolase activity | MF |
| GO:0003676 | nucleic acid 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.
