General information for g14139.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Lysophosphatidylcholine acyltransferase.
Parent gene
- The parent gene g14139 is located on chr_1: 34863760..34864661 (- 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_1 | g14139 | g14139.t4 | isoform | g14139.t4 | 34860478 | 34863760 |
| chr_1 | g14139 | g14139.t4 | exon | g14139.t4.exon1 | 34860478 | 34860602 |
| chr_1 | g14139 | g14139.t4 | cds | g14139.t4.CDS1 | 34860479 | 34860602 |
| chr_1 | g14139 | g14139.t4 | exon | g14139.t4.exon2 | 34860673 | 34861078 |
| chr_1 | g14139 | g14139.t4 | cds | g14139.t4.CDS2 | 34860673 | 34861078 |
| chr_1 | g14139 | g14139.t4 | exon | g14139.t4.exon3 | 34861934 | 34862151 |
| chr_1 | g14139 | g14139.t4 | cds | g14139.t4.CDS3 | 34861934 | 34862114 |
| chr_1 | g14139 | g14139.t4 | exon | g14139.t4.exon4 | 34862288 | 34862437 |
| chr_1 | g14139 | g14139.t4 | exon | g14139.t4.exon5 | 34863617 | 34863760 |
| chr_1 | g14139 | g14139.t4 | TSS | g14139.t4 | 34863869 | 34863869 |
| chr_1 | g14139 | g14139.t4 | TTS | g14139.t4 | NA | NA |
Sequences
>g14139.t4 Gene=g14139 Length=1043
ATGAGTTTTGATGAGGAAAAACGTGAAATAAATGAAAGTCCAAGTTGTACAAAGAAAAAA
TTTAAAGAAATACCAATTAAAAATGCGTTTATTCGCGACAAGAATTATTGGGATAAAGAT
AATGAGTTGTTTGATAAAATTAAGACAGCAATATTGACAGTTTTTTTAGTACCAATTCGA
GTAATATGCATCATAGTACTCTTGTTGTTTGCTTGGAGTTTAGCTTATATTGGAATTTAT
GGTTTCACACGTGAAGAATTGAAACTTAGACCTTTGAGTGGTTGGAGAAGGTGAGAAACT
GAGGACATTCGTTGGATGGGTCTTTAGATGGATGTTTTTTGTTGGCTCAGCTCATTTTGT
GAAAGTAAAAGGCAAATTAGCTTCACCGAAAGAGGCTAAAATTTTATTAGGTGCACCACA
TACTAGCTTTTTTGATGCTCTTTCCGTGATTTTATCTGGACCTTCTGCAGTAGTAGCGAA
GCATGAGGCAAATGACATTCCTTTTTACGGAAAAATCATTGATATGGCCCAACCTTTATA
TGTCAAACGTGAAGATCACAGTTCTCGTACGACAACAATTCAAGATATTCTCACACGTGT
GAAATCAAAAGAAGATTGGCCGAGTCTTATAATATTTCCAGAAGGAACTTGCACAAATAG
GACGAGTCTCATTAAATTTAAGCTTGGTGCATTCTATCCTGGACAACCCGTTCAACCAAT
TTTAATTCGATATCCGAACAAAATTGACACATTTACTTGGACTTGGAAAGGGCCTCATGT
TATGTTATTGATATGGAGAACTTTGGCTCAATTTCACACATTTGTGGAAATTGAATATTT
ACCCGTTTATACCCCGAGTGAAGAAGAGAAACAAAATCCAAAACTGTTTGCTCAAAATGT
ACAAAATTTAATGTCGAAAGCATTAAATATTCCTATATCGGACTATACATTCGACGATTG
TAAGCTAATGGAATACGCTCAAAAATGCAAATTACAGTTTGCTGAAAAAGTCTCTGATAT
GTTGAGACTTCGTGAGAAAATTG
>g14139.t4 Gene=g14139 Length=237
MFFVGSAHFVKVKGKLASPKEAKILLGAPHTSFFDALSVILSGPSAVVAKHEANDIPFYG
KIIDMAQPLYVKREDHSSRTTTIQDILTRVKSKEDWPSLIIFPEGTCTNRTSLIKFKLGA
FYPGQPVQPILIRYPNKIDTFTWTWKGPHVMLLIWRTLAQFHTFVEIEYLPVYTPSEEEK
QNPKLFAQNVQNLMSKALNIPISDYTFDDCKLMEYAQKCKLQFAEKVSDMLRLREKI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g14139.t4 | CDD | cd07991 | LPLAT_LPCAT1-like | 1 | 211 | 0 |
| 2 | g14139.t4 | PANTHER | PTHR23063 | PHOSPHOLIPID ACYLTRANSFERASE | 3 | 220 | 0 |
| 3 | g14139.t4 | PANTHER | PTHR23063:SF21 | LYSOPHOSPHATIDYLCHOLINE ACYLTRANSFERASE 2 | 3 | 220 | 0 |
| 1 | g14139.t4 | Pfam | PF01553 | Acyltransferase | 10 | 123 | 0 |
| 5 | g14139.t4 | SMART | SM00563 | plsc_2 | 24 | 135 | 0 |
| 4 | g14139.t4 | SUPERFAMILY | SSF69593 | Glycerol-3-phosphate (1)-acyltransferase | 5 | 199 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
## Warning: Removed 1 row(s) containing missing values (geom_path).
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0016746 | acyltransferase 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.
