Gene loci information

Transcript annotation

  • This transcript has been annotated as Endonuclease G, mitochondrial.

Parent gene

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.t4 TSS g13917.t4 33395561 33395561
chr_1 g13917 g13917.t4 isoform g13917.t4 33395622 33396746
chr_1 g13917 g13917.t4 exon g13917.t4.exon1 33395622 33395729
chr_1 g13917 g13917.t4 cds g13917.t4.CDS1 33395622 33395729
chr_1 g13917 g13917.t4 exon g13917.t4.exon2 33395785 33396105
chr_1 g13917 g13917.t4 cds g13917.t4.CDS2 33395785 33396105
chr_1 g13917 g13917.t4 exon g13917.t4.exon3 33396169 33396323
chr_1 g13917 g13917.t4 cds g13917.t4.CDS3 33396169 33396323
chr_1 g13917 g13917.t4 exon g13917.t4.exon4 33396401 33396746
chr_1 g13917 g13917.t4 cds g13917.t4.CDS4 33396401 33396746
chr_1 g13917 g13917.t4 TTS g13917.t4 33396795 33396795

Sequences

>g13917.t4 Gene=g13917 Length=930
ATGAGACTACACGCAGTAAACACAGTGAAAAAATTAGTGTTAATATCAGGAATTAGTGGA
CTTTCATATTACGCTGGACGTCAATCAATAGAAAATAAATTAGAATCTTGCCAAAAAGAG
ACTAAAAATTTATTAAGTAAACCAGCACTGCCTATATTCAGCACAGTATCAGCTGCTGCT
TTAATTCCTCGAAATGAAACCTTCGATAAGCCTGCCATAATTCCTAAGGAAAACAGAATA
GTGCAAATTATGAGATATGGATTCCCTTCTCTCGATAATGTTCGCTCATTTGATGATTTT
GTATTATCATATGATCGGAGAATGCGAACTGCAGCTTGGGTTTTTGAACATTTGACTGCT
GAAAGTGTAAAGCATAACGATGCAGTCGATAGAGCGAAATGTGATTTTAAGCCAGATGAA
AGCATACATCCATTCTTTAGGGCGGATAATTCAGATTATAAAAAATCGGGGTATGATAGG
GGACATTTAGCTGCAGCTGGAAATCACAAAAGAGAACAGCGTCATATAGAGCAAACATTT
TATTTAAGTAATATAAGTCCTCAAGTGGGAGTTGGATTCAATAGATATGTAAGAAAGCTA
ACCAAAACCTTTAGAAATGTTTATGTTTGCACTGGACCACTTTATCTTCCTCGAAAGGAA
GCTAATGGGAAGCTTTATGTTAAATATGAAGTTATTGGGTCAAGTAACGTTGCAGTGCCA
ACTCATTTTTTTAAAGTAGTCGTGTGTGAAGATGCTGATGGAAAATTAGAATTGGAATCA
TATGTAATGCCTAATGAAGTAATTTCGGATGATACTCCTCTTGAAAATTTTAGAGTTCCA
CCTGAAAGCATCGAACGAGCAGCAGGATTGCTGTTTTTTGATAAAATTAATAGGAAAATG
CTCAGTAAAATAAATGGAAAAAAATTATAG

>g13917.t4 Gene=g13917 Length=309
MRLHAVNTVKKLVLISGISGLSYYAGRQSIENKLESCQKETKNLLSKPALPIFSTVSAAA
LIPRNETFDKPAIIPKENRIVQIMRYGFPSLDNVRSFDDFVLSYDRRMRTAAWVFEHLTA
ESVKHNDAVDRAKCDFKPDESIHPFFRADNSDYKKSGYDRGHLAAAGNHKREQRHIEQTF
YLSNISPQVGVGFNRYVRKLTKTFRNVYVCTGPLYLPRKEANGKLYVKYEVIGSSNVAVP
THFFKVVVCEDADGKLELESYVMPNEVISDDTPLENFRVPPESIERAAGLLFFDKINRKM
LSKINGKKL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g13917.t4 CDD cd00091 NUC 86 308 2.35885E-77
6 g13917.t4 Coils Coil Coil 27 47 -
5 g13917.t4 Gene3D G3DSA:3.40.570.10 Extracellular Endonuclease 65 309 3.2E-100
2 g13917.t4 PANTHER PTHR13966 ENDONUCLEASE RELATED 72 303 1.3E-82
3 g13917.t4 PANTHER PTHR13966:SF5 ENDONUCLEASE G, MITOCHONDRIAL 72 303 1.3E-82
1 g13917.t4 Pfam PF01223 DNA/RNA non-specific endonuclease 83 298 7.4E-54
8 g13917.t4 ProSitePatterns PS01070 DNA/RNA non-specific endonucleases active site. 159 167 -
10 g13917.t4 SMART SM00892 Endonuclease_NS_2 96 299 3.1E-73
9 g13917.t4 SMART SM00477 endoplus 97 299 1.3E-83
4 g13917.t4 SUPERFAMILY SSF54060 His-Me finger endonucleases 82 304 5.06E-60

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

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.

Raw TPM values