General information for g14998.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Plancitoxin-1.
Parent gene
- The parent gene g14998 is located on chr_4: 3465074..3474915 (- 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_4 | g14998 | g14998.t9 | TTS | g14998.t9 | 3465055 | 3465055 |
| chr_4 | g14998 | g14998.t9 | isoform | g14998.t9 | 3465074 | 3474915 |
| chr_4 | g14998 | g14998.t9 | exon | g14998.t9.exon1 | 3465074 | 3465638 |
| chr_4 | g14998 | g14998.t9 | cds | g14998.t9.CDS1 | 3465074 | 3465638 |
| chr_4 | g14998 | g14998.t9 | exon | g14998.t9.exon2 | 3465699 | 3465919 |
| chr_4 | g14998 | g14998.t9 | cds | g14998.t9.CDS2 | 3465699 | 3465919 |
| chr_4 | g14998 | g14998.t9 | exon | g14998.t9.exon3 | 3466041 | 3466305 |
| chr_4 | g14998 | g14998.t9 | cds | g14998.t9.CDS3 | 3466041 | 3466305 |
| chr_4 | g14998 | g14998.t9 | exon | g14998.t9.exon4 | 3466367 | 3466506 |
| chr_4 | g14998 | g14998.t9 | cds | g14998.t9.CDS4 | 3466367 | 3466476 |
| chr_4 | g14998 | g14998.t9 | TSS | g14998.t9 | 3466530 | 3466530 |
| chr_4 | g14998 | g14998.t9 | exon | g14998.t9.exon5 | 3474894 | 3474915 |
Sequences
>g14998.t9 Gene=g14998 Length=1213
TTTTATTCTTCGCTTTCTATCATGACGACTGCTGATTTATACTGCAGTTATAATGAGAAA
TTTTTTTATCAATTTTTTGATAATTTTGCTCTTTATTAGAAATTCATTTGAAATTGCTGA
AAGATTGGGATGTCAAGATGAAAATGGTGATATGGTTGACTGGTTTTACCTTTATAAACT
TCCGAGCAAATATTCACACATATCAAATTCAGGTCTTGAATATCTTTACATTACTCCTCA
TTCTTCTTCTTTATCATCATGGACAAAATCAATAAAATTAATAAATTCAACGGAAAGTAT
GCCTGGAAGAACTCTTTCAATAATTTATAACAAAAGTCACAACCATGATTTGCTATTTGC
AATGTACAATGATGAACATCCAAATGGAGATGTTGATACAAAAAGAGGTCACACTAAAGG
CGTTGTTGTCGCAAATGACATTTCTGGTTTCTGGCTAGTTCATTCAGTTCCAAAATTCCC
ACCAGCTGCAGATGAAGAAAAATATGACTATCCACATACTGGTAAAATTTATGGTCAAAG
TTTTCTTTGCATTAGTTTTACTGCTGAACAAATTGGAATTGTTGGAAAGCAGCTTCAATA
TAATGAACCAGCTTTTTATTCTTCACAAGTTCCAAAATATCTTGAACATATACATCCACA
AGTAGTTGAAGCTTTAAAAATGAAAGAAATTAAATCAGCTCCATTTTATCACATTGCAAC
ACTTCGATCACGTCATGGAACAATTTTTACATCTTATGCAAAATCAAAAGCTTTTAATAA
AGAACTTTATGAAGATTTTGTTGCTCCAAATTATCTGGCTGGTGATTTTTATGTTGAATC
ATGGCAACACGGACGGGGAAATATAAAAAGTGATTGTACAAAACCAACAAAAGTTTACAA
CATAAAAGATGTTTCAATTCATGGATCAGACTTTGGAAATGATGATAAAATTATTTTTGA
AACATTAAAAGATCATTCAAAATGGTTAGTTAGTAAAGAAAATAATTTGACATGCATTGG
TGATATAAATCGACAGGAACATCAGAAAGTTAGAGGAGGTGGAACTGTTTGTTTAAAAAA
TATTACAATTTCTAATATTTATACCAAAAGTATTGAAAGTTCTGAACCTTGCATAAAGAA
TCAATTTAAAAAATATTTGCCAGTAAAGAAAACTTCTAAAAATATTAAACTTTATTTTGA
TATTTTAGTATAA
>g14998.t9 Gene=g14998 Length=386
MRNFFINFLIILLFIRNSFEIAERLGCQDENGDMVDWFYLYKLPSKYSHISNSGLEYLYI
TPHSSSLSSWTKSIKLINSTESMPGRTLSIIYNKSHNHDLLFAMYNDEHPNGDVDTKRGH
TKGVVVANDISGFWLVHSVPKFPPAADEEKYDYPHTGKIYGQSFLCISFTAEQIGIVGKQ
LQYNEPAFYSSQVPKYLEHIHPQVVEALKMKEIKSAPFYHIATLRSRHGTIFTSYAKSKA
FNKELYEDFVAPNYLAGDFYVESWQHGRGNIKSDCTKPTKVYNIKDVSIHGSDFGNDDKI
IFETLKDHSKWLVSKENNLTCIGDINRQEHQKVRGGGTVCLKNITISNIYTKSIESSEPC
IKNQFKKYLPVKKTSKNIKLYFDILV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g14998.t9 | CDD | cd09120 | PLDc_DNaseII_1 | 24 | 169 | 4.05706E-58 |
| 11 | g14998.t9 | CDD | cd09121 | PLDc_DNaseII_2 | 217 | 360 | 4.63051E-54 |
| 2 | g14998.t9 | PANTHER | PTHR10858:SF23 | DEOXYRIBONUCLEASE II | 13 | 362 | 4.9E-98 |
| 3 | g14998.t9 | PANTHER | PTHR10858 | DEOXYRIBONUCLEASE II | 13 | 362 | 4.9E-98 |
| 1 | g14998.t9 | Pfam | PF03265 | Deoxyribonuclease II | 27 | 360 | 6.4E-103 |
| 6 | g14998.t9 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 18 | - |
| 7 | g14998.t9 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 8 | g14998.t9 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 14 | - |
| 9 | g14998.t9 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 15 | 18 | - |
| 5 | g14998.t9 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 19 | 386 | - |
| 4 | g14998.t9 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
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 transcript has been annotated with K01158 (deoxyribonuclease II)
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.
