General information for g8990.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Palmitoyltransferase app.
Parent gene
- The parent gene g8990 is located on chr_2: 34407825..34408936 (+ 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 | g8990 | g8990.t3 | isoform | g8990.t3 | 34399693 | 34404362 |
| chr_2 | g8990 | g8990.t3 | exon | g8990.t3.exon1 | 34399693 | 34400085 |
| chr_2 | g8990 | g8990.t3 | TSS | g8990.t3 | 34399960 | 34399960 |
| chr_2 | g8990 | g8990.t3 | exon | g8990.t3.exon2 | 34403264 | 34404152 |
| chr_2 | g8990 | g8990.t3 | TTS | g8990.t3 | 34403570 | 34403570 |
| chr_2 | g8990 | g8990.t3 | cds | g8990.t3.CDS1 | 34403782 | 34404152 |
| chr_2 | g8990 | g8990.t3 | exon | g8990.t3.exon3 | 34404234 | 34404362 |
| chr_2 | g8990 | g8990.t3 | cds | g8990.t3.CDS2 | 34404234 | 34404360 |
Sequences
>g8990.t3 Gene=g8990 Length=1411
AATAAACTTGTAATTTTTATTTTTTGTCATTGTCTTTCAGCTGATTCAATTTATTTTGGG
AATAATTGAGGTCATTTGATTTGTTTTTATTGATGAATGAAGTCTCAAACAGCTGAGTAT
GATGTGTATAACTTTTTTGTAACGTCTTTTCTTATGAAAAGAAGTTTTTGTATGTCAGTA
CTTGCACGATTTGCTACAAGGAGCAAGTAAAAAAAAATTTTATTCTCTCTACTCATCATT
TTTATTTAGAAATAAGGTGGTAAATAGCAGTGTTAGAACAACAGAAAGTGGTGCAAGTCG
TAGTTAATGTCAAGTTAAATGTGAAAAAGTTTAAATGTCATATGCATTTTAGTGCTTAAA
ATTAAGAAGTTATAAGAAATATAAATTAGAGTTACAAAATTTTTTTAAGCACCAAACGCT
CTCATTAATTAGTTTTATTAATGATTTTTGCTGATTATTGAAGGCTCCAAAGAAGATTTT
ATTTTCGCATTCATATAAGAGCAGAAAAAAGTTCAACTTCCTTCCTATTTCGGAAATTAC
TTAATGATATAATTTGCCACGTGCCAGATATTTATTTTTATTCTGAAGCAGTCCTCACGC
AAAAAAAGACAAAACAAAAAAAGTAAAGTTGTTAGATTCTCTATGACACGAATGAGAGGG
CAAACGAGCATTGGAATGTTGTGAAGAAACAATAGAAAAAGAGAGATAAAAAACCACATA
AATATCGCAAGAAAAAAAGAAGGAAAGTTGTTTTTTTGCTTCCACCAAGTCTACAAAACG
AGAAACAAAACTACTTTTAATACCATGTTGTAGCTTTAAGCACCTGCGAATCATAGAGAA
AATAGAGACTTTAAGCTCAGTGGGAAAACCGTAGTATTTACGTAACAAGAGCTTAGAATT
TTCATCTTATAATGGCTTTAAAAATGACATCACAGCAACAACAAAAAGTTACGAGAAAAT
GGGAAGTATTTCCCGGAAGAAACAAATTTTATTGTGATGGATATTTAATGACAGCACCAA
ACACCAGCATATTTTATTTAACTGTTGTACTTATAACAGGAACTAGTACCCTTTTCTTTG
TCTTCGATTGTCCTTTCCTTGCCGAAAAAATCACATTAGGCATACCAATTATTGGTGGCA
TTCTTTACGTTTTTACAATGTGCTCTCTGCTAAGAACGACATTCAGTGATCCGGGAATTT
TGCCACGTGCTTCATGTGATGAGGCTGCTTATATTGAAAAGCAAATTGAAGTTCCAAATT
CACTAAATAGTCCAACATATAGACCGCCGCCAAGAACAAAAGAAGTTTTTGTACGTGGTC
AGACTGTAAAACTCAAATATTGCTTCACATGCAAGATTTTTCGACCACCAAGAGCATCTC
ATTGTAGCTTATGTGATAACTGTGTCGATAG
>g8990.t3 Gene=g8990 Length=166
MALKMTSQQQQKVTRKWEVFPGRNKFYCDGYLMTAPNTSIFYLTVVLITGTSTLFFVFDC
PFLAEKITLGIPIIGGILYVFTMCSLLRTTFSDPGILPRASCDEAAYIEKQIEVPNSLNS
PTYRPPPRTKEVFVRGQTVKLKYCFTCKIFRPPRASHCSLCDNCVD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g8990.t3 | PANTHER | PTHR22883:SF28 | PALMITOYLTRANSFERASE ZDHHC14-RELATED | 11 | 166 | 6.4E-65 |
| 3 | g8990.t3 | PANTHER | PTHR22883 | ZINC FINGER DHHC DOMAIN CONTAINING PROTEIN | 11 | 166 | 6.4E-65 |
| 1 | g8990.t3 | Pfam | PF01529 | DHHC palmitoyltransferase | 139 | 165 | 9.0E-7 |
| 7 | g8990.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 39 | - |
| 11 | g8990.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 40 | 58 | - |
| 9 | g8990.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 59 | 69 | - |
| 10 | g8990.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 70 | 91 | - |
| 8 | g8990.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 92 | 166 | - |
| 6 | g8990.t3 | ProSiteProfiles | PS50216 | DHHC domain profile. | 142 | 166 | 11.984 |
| 4 | g8990.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 39 | 58 | - |
| 5 | g8990.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 68 | 87 | - |
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:0016409 | palmitoyltransferase activity | 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.
