General information for g3442.t18
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Acyl-CoA:lysophosphatidylglycerol acyltransferase 1.
Parent gene
- The parent gene g3442 is located on chr_3: 25485261..25486662 (+ 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_3 | g3442 | g3442.t18 | isoform | g3442.t18 | 25484667 | 25485504 |
| chr_3 | g3442 | g3442.t18 | exon | g3442.t18.exon1 | 25484667 | 25485201 |
| chr_3 | g3442 | g3442.t18 | cds | g3442.t18.CDS1 | 25484767 | 25485201 |
| chr_3 | g3442 | g3442.t18 | exon | g3442.t18.exon2 | 25485262 | 25485504 |
| chr_3 | g3442 | g3442.t18 | cds | g3442.t18.CDS2 | 25485262 | 25485504 |
| chr_3 | g3442 | g3442.t18 | TTS | g3442.t18 | 25485585 | 25485585 |
| chr_3 | g3442 | g3442.t18 | TSS | g3442.t18 | NA | NA |
Sequences
>g3442.t18 Gene=g3442 Length=778
AGGCGGATTTTTAAGAAAGAGACGTGAAGCAAGTCAGCGGTATGCTCAAAAGAACAATTT
ACCATTACTTCATAATGTGACACTGCCACGTATCGGCGCCATGAAAACTATTATTGATCA
ACTCGGTAGTTCAGACGAAGATCGTCCCTCTCAACAAACCACAACTCCACCACATTCAAT
AAAAAATATCAATAAAGTGATTAATGGTGATGGAGATGAATTCTATATCGATAATGAATA
TACAAATCAAACATCAACACCGCCAGACACACCACTAAGAAATGCTTACAATGTAAGCAA
TAATCGCAACAATGAGAATAATAATAGACAAACCCAGAGAATAATTGATGACGATGAGAA
CCTAAAGGAGAAAATTGGCGAAGCTGAAGTTAGTTCTCGAAAAACGCTCAAATATATTGT
CGATATAACGGTGGCATATGCTAATGGCAAACCACTTGATTTGGCAGATATAGTGACGGG
CATAAGGAAGGCATGTCAAACACATATGCTGTATAGAGTATATCGATGTTCAGAGGTCCC
AAGAGATGAAGAATCTTTAACAAAATGGCTGTATGATCGATTTGTAGAGAAAGAGGAACT
ATTAGAAAATTTTTACAATACCGGCTCATTTGCTTATCCATCAGAAGTTCAACCAACTGT
AGTGTCGCAAGATCTTTTGCGTTTCTTCCTAATTCATCTTTTCTTTATAACATCCTCATA
TTTACATTTTCAAATGCTTAGTATGCTTTATACAGCAATTTTTCCATTTGACACTTAA
>g3442.t18 Gene=g3442 Length=225
MKTIIDQLGSSDEDRPSQQTTTPPHSIKNINKVINGDGDEFYIDNEYTNQTSTPPDTPLR
NAYNVSNNRNNENNNRQTQRIIDDDENLKEKIGEAEVSSRKTLKYIVDITVAYANGKPLD
LADIVTGIRKACQTHMLYRVYRCSEVPRDEESLTKWLYDRFVEKEELLENFYNTGSFAYP
SEVQPTVVSQDLLRFFLIHLFFITSSYLHFQMLSMLYTAIFPFDT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g3442.t18 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 24 | - |
| 2 | g3442.t18 | PANTHER | PTHR10983:SF2 | ACYL-COA:LYSOPHOSPHATIDYLGLYCEROL ACYLTRANSFERASE 1 | 52 | 210 | 1.5E-28 |
| 3 | g3442.t18 | PANTHER | PTHR10983 | 1-ACYLGLYCEROL-3-PHOSPHATE ACYLTRANSFERASE-RELATED | 52 | 210 | 1.5E-28 |
| 1 | g3442.t18 | Pfam | PF16076 | Acyltransferase C-terminus | 127 | 183 | 4.1E-15 |
| 7 | g3442.t18 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 191 | - |
| 8 | g3442.t18 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 192 | 210 | - |
| 6 | g3442.t18 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 211 | 225 | - |
| 4 | g3442.t18 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 195 | 217 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
