Gene loci information

Transcript annotation

  • This transcript has been annotated as Plancitoxin-1.

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_4 g14998 g14998.t2 isoform g14998.t2 3464736 3466476
chr_4 g14998 g14998.t2 exon g14998.t2.exon1 3464736 3465638
chr_4 g14998 g14998.t2 cds g14998.t2.CDS1 3465074 3465638
chr_4 g14998 g14998.t2 exon g14998.t2.exon2 3465699 3465919
chr_4 g14998 g14998.t2 cds g14998.t2.CDS2 3465699 3465919
chr_4 g14998 g14998.t2 exon g14998.t2.exon3 3466047 3466476
chr_4 g14998 g14998.t2 cds g14998.t2.CDS3 3466047 3466169
chr_4 g14998 g14998.t2 TSS g14998.t2 3466530 3466530
chr_4 g14998 g14998.t2 TTS g14998.t2 NA NA

Sequences

>g14998.t2 Gene=g14998 Length=1554
ATGAGAAATTTTTTTATCAATTTTTTGATAATTTTGCTCTTTATTAGAAATTCATTTGAA
ATTGCTGAAAGATTGGGATGTCAAGATGAAAATGGTGATATGGTTGACTGGTACGAAAAA
CTTTTTTTTACTAATTTTTAGAATATAAAAAAAAAAATAATTCTTTTTCAGGTTTTACCT
TTATAAACTTCCGAGCAAATATTCACACATATCAAATTCAGGTCTTGAATATCTTTACAT
TACTCCTCATTCTTCTTCTTTATCATCATGGACAAAATCAATAAAATTAATAAATTCAAC
GGAAAGTATGCCTGGAAGAACTCTTTCAATAATTTATAACAAAAGTCACAACCATGATTT
GCTATTTGCAATGTACAATGATGAACATCCAAATGGAGATGTTGATACAAAAAGAGGTCA
CACTAAAGGCGTCGCAAATGACATTTCTGGTTTCTGGCTAGTTCATTCAGTTCCAAAATT
CCCACCAGCTGCAGATGAAGAAAAATATGACTATCCACATACTGGTAAAATTTATGGTCA
AAGTTTTCTTTGCATTAGTTTTACTGCTGAACAAATTGGAATTGTTGGAAAGCAGCTTCA
ATATAATGAACCAGCTTTTTATTCTTCACAAGTTCCAAAATATCTTGAACATATACATCC
ACAAGTAGTTGAAGCTTTAAAAATGAAAGAAATTAAATCAGCTCCATTTTATCACATTGC
AACACTTCGATCACGTCATGGAACAATTTTTACATCTTATGCAAAATCAAAAGCTTTTAA
TAAAGAACTTTATGAAGATTTTGTTGCTCCAAATTATCTGGCTGGTGATTTTTATGTTGA
ATCATGGCAACACGGACGGGGAAATATAAAAAGTGATTGTACAAAACCAACAAAAGTTTA
CAACATAAAAGATGTTTCAATTCATGGATCAGACTTTGGAAATGATGATAAAATTATTTT
TGAAACATTAAAAGATCATTCAAAATGGTTAGTTAGTAAAGAAAATAATTTGACATGCAT
TGGTGATATAAATCGACAGGAACATCAGAAAGTTAGAGGAGGTGGAACTGTTTGTTTAAA
AAATATTACAATTTCTAATATTTATACCAAAAGTATTGAAAGTTCTGAACCTTGCATAAA
GAATCAATTTAAAAAATATTTGCCAGTAAAGAAAACTTCTAAAAATATTAAACTTTATTT
TGATATTTTAGTATAAAATAAAATTAATTTTAAGGAAATTTTTTATACAATTTTAATTAT
TTTATTAGGAATCAAAAAAAAATTGATTATTTTCAGTTTACCATGAAATTAAGATATTAT
GACCAAAACTTGCAAAAATTTCTGCAATTGAAATTCTTTTGTTAAATTACATTATCAATA
ATTAAATGCATTTTTAGCGGGTTTTGGTTTGATAGAATGAATCAGTCAATTATGATTTTA
TAAATGATTCATTCTGACGAATCATAAAATGACCCACATTAGAAATAGCATAAGTTTGCA
TTTTTTGCTATTTTGAGAATTATGTAAATACGGAAACAAAAAATAATTGAAGTT

>g14998.t2 Gene=g14998 Length=302
MPGRTLSIIYNKSHNHDLLFAMYNDEHPNGDVDTKRGHTKGVANDISGFWLVHSVPKFPP
AADEEKYDYPHTGKIYGQSFLCISFTAEQIGIVGKQLQYNEPAFYSSQVPKYLEHIHPQV
VEALKMKEIKSAPFYHIATLRSRHGTIFTSYAKSKAFNKELYEDFVAPNYLAGDFYVESW
QHGRGNIKSDCTKPTKVYNIKDVSIHGSDFGNDDKIIFETLKDHSKWLVSKENNLTCIGD
INRQEHQKVRGGGTVCLKNITISNIYTKSIESSEPCIKNQFKKYLPVKKTSKNIKLYFDI
LV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
4 g14998.t2 CDD cd09120 PLDc_DNaseII_1 1 85 0
5 g14998.t2 CDD cd09121 PLDc_DNaseII_2 133 276 0
2 g14998.t2 PANTHER PTHR10858:SF23 DEOXYRIBONUCLEASE II 3 278 0
3 g14998.t2 PANTHER PTHR10858 DEOXYRIBONUCLEASE II 3 278 0
1 g14998.t2 Pfam PF03265 Deoxyribonuclease II 3 276 0

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:0004531 deoxyribonuclease II activity MF
GO:0006259 DNA metabolic process BP

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.

Raw TPM values