General information for g14139.t3
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.t3 | isoform | g14139.t3 | 34859209 | 34863760 |
| chr_1 | g14139 | g14139.t3 | exon | g14139.t3.exon1 | 34859209 | 34860099 |
| chr_1 | g14139 | g14139.t3 | TTS | g14139.t3 | 34859249 | 34859249 |
| chr_1 | g14139 | g14139.t3 | cds | g14139.t3.CDS1 | 34859869 | 34860099 |
| chr_1 | g14139 | g14139.t3 | exon | g14139.t3.exon2 | 34860168 | 34860423 |
| chr_1 | g14139 | g14139.t3 | cds | g14139.t3.CDS2 | 34860168 | 34860423 |
| chr_1 | g14139 | g14139.t3 | exon | g14139.t3.exon3 | 34860477 | 34860602 |
| chr_1 | g14139 | g14139.t3 | cds | g14139.t3.CDS3 | 34860477 | 34860602 |
| chr_1 | g14139 | g14139.t3 | exon | g14139.t3.exon4 | 34860673 | 34861078 |
| chr_1 | g14139 | g14139.t3 | cds | g14139.t3.CDS4 | 34860673 | 34861078 |
| chr_1 | g14139 | g14139.t3 | exon | g14139.t3.exon5 | 34861398 | 34861606 |
| chr_1 | g14139 | g14139.t3 | cds | g14139.t3.CDS5 | 34861398 | 34861569 |
| chr_1 | g14139 | g14139.t3 | exon | g14139.t3.exon6 | 34862292 | 34862437 |
| chr_1 | g14139 | g14139.t3 | exon | g14139.t3.exon7 | 34863442 | 34863760 |
| chr_1 | g14139 | g14139.t3 | TSS | g14139.t3 | 34863869 | 34863869 |
Sequences
>g14139.t3 Gene=g14139 Length=2353
ATGAGTTTTGATGAGGAAAAACGTGAAATAAATGAAAGTCCAAGTTGTACAAAGAAAAAA
TTTAAAGAAATACCAATTAAAAATGCGTTTATTCGCGACAAGAATTATTGGGATAAAGAT
AATGAGTTGTTTGATAAAATTAAGGTAAATTTTGATACATCATATTTCATTTTTCATTCA
AAAATGCACAAATTTATATGCACAAATTGAGTGGAATTTAGCAGTCGTGGAATGTTGAAC
AAAAAATAATAATGTGCGTCTTAGAAAAATCATCTGTTCTCAAATAATTCATAAATTCGA
AAGCATCAAAATCGATTGAACAGCAATATTGACAGTTTTTTTAGTACCAATTCGAGTAAT
ATGCATCATAGTACTCTTGTTGTTTGCTTGGAGTTTAGCTTATATTGGAATTTATGGTTT
CACACGTGAAGAATTGAAACTTAGACCTTTGAGTGGTTGGAGAAGACAATTAAAATTCAT
AATAAGTCAAATTGCTTTATCCATGTGGATGCTTTGCGGAATCGGAGTAATTGTTCGAGG
TGAAAAAAAGGCAAGTCGTGGTGAAGCTCCAATAATAGTTGCAGCGCCACATTCAACGTT
TTTCGATGCAATAATTATCTTTATTACTCATATGGGCTCGCCATTAGTGCGTGATGAGGA
CAAGCGTTTGGGCAAAATCATTGATATGGCCCAACCTTTATATGTCAAACGTGAAGATCA
CAGTTCTCGTACGACAACAATTCAAGATATTCTCACACGTGTGAAATCAAAAGAAGATTG
GCCGAGTCTTATAATATTTCCAGAAGGAACTTGCACAAATAGGACGAGTCTCATTAAATT
TAAGCTTGGTGCATTCTATCCTGGACAACCCGTTCAACCAATTTTAATTCGATATCCGAA
CAAAATTGACACATTTACTTGGACTTGGAAAGGGCCTCATGTTATGTTATTGATATGGAG
AACTTTGGCTCAATTTCACACATTTGTGGAAATTGAATATTTACCCGTTTATACCCCGAG
TGAAGAAGAGAAACAAAATCCAAAACTGTTTGCTCAAAATGTACAAAATTTAATGTCGAA
AGCATTAAATATTCCTATATCGGACTATACATTCGACGATTGTAAGCTAATGGAATACGC
TCAAAAATGCAAATTACAGTTTGCTGAAAAAGTCTCTGATATGTTGAGACTTCGTGAGAA
AATTGGACTTGCACAATCTCAAATTGAGGAGTACATTGTAAAGGAAAATTTCAAAGGAAA
TGAAGATTATTATTTTGAATTCAGTGAATTTGTACATCGTTTAAAAATTCCAGCAGACAA
CATTTCATTTACATTGTTTAAGCTATTTATTAGTGAAAGTGATATTGCTGATGTGATTGA
CTTCAAGGAGTATTTATTGCACGCTATATTTTTGATCAAAAACTCTGAGCCTAAAATTGA
GTTGCTAAGAATGATGTTTATGTTATATGGTGAAGATGGTCGAGTGAATCGAGAGCCATT
TATAAAAATTATGCAGCACTTTTCATCAGTGAGTCTAAAAGAGCTCACAAAATTATTTTA
TTCATTGGATACAAGGAATTTAGGATCAATAGCTTTCTATCAATTTGTTGAAGCAACTCA
AAATAATTCAAAATTTACCCAATTATATACACCAAATCGCAACTTCCGTCAGAAAAATAA
GGATCCTCGTTAAATATATACCTAAATATTTTAGTAAACTTATATACCTAATAGTTTCAT
CACAATAATCACATTTTAATCGAATTAACCAGAATTTCAACTATTTTATTGAGAAATGGT
TTTTGAACTCATTAGAAAATTTTTCTTCTGCCCATGTATGTGTATAAAAAATAAATTTTC
ATAATTATCAATTTACTTACAATCATTTGAAATGAAATAATATTGAATTACCTCATTTGC
ACAAATGGAAAAAAATAGTAATGATTATATACAAAATTAATCAATACGATAAATATCAAG
AGTTTATATAATCCACTAATGGCATAGAAGAATGCTCATAAATTTTTTTTTTGAATCTTT
ATTAAAGTTGTAAGACATCACACATTTTATTTTTGTACTTACCAAAACTTTTACTTTTTG
AAGATATTTATTGAATAGAAAAATTATAATGAGATAATGATATACAATGTATTAGAAGAA
AATTTAATGTTAACATTGATCGTAAATATGATATATTTTTATGGCAAAAGGCTTTGATGC
TAGTTTTATTTTATTTTATTTTTTTTTTGATGATGAGTATGTTAGAAAAATGTTAATAGA
ATAAAAGAAACAAATTTGTATCCATAAAAATAATGATGAATTTTATTAATAAAATTATGG
TTTACAGTACAAT
>g14139.t3 Gene=g14139 Length=396
MWMLCGIGVIVRGEKKASRGEAPIIVAAPHSTFFDAIIIFITHMGSPLVRDEDKRLGKII
DMAQPLYVKREDHSSRTTTIQDILTRVKSKEDWPSLIIFPEGTCTNRTSLIKFKLGAFYP
GQPVQPILIRYPNKIDTFTWTWKGPHVMLLIWRTLAQFHTFVEIEYLPVYTPSEEEKQNP
KLFAQNVQNLMSKALNIPISDYTFDDCKLMEYAQKCKLQFAEKVSDMLRLREKIGLAQSQ
IEEYIVKENFKGNEDYYFEFSEFVHRLKIPADNISFTLFKLFISESDIADVIDFKEYLLH
AIFLIKNSEPKIELLRMMFMLYGEDGRVNREPFIKIMQHFSSVSLKELTKLFYSLDTRNL
GSIAFYQFVEATQNNSKFTQLYTPNRNFRQKNKDPR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g14139.t3 | CDD | cd07991 | LPLAT_LPCAT1-like | 1 | 208 | 0.0e+00 |
| 7 | g14139.t3 | Gene3D | G3DSA:1.10.238.10 | - | 212 | 383 | 4.5e-06 |
| 2 | g14139.t3 | PANTHER | PTHR23063 | PHOSPHOLIPID ACYLTRANSFERASE | 1 | 387 | 0.0e+00 |
| 3 | g14139.t3 | PANTHER | PTHR23063:SF21 | LYSOPHOSPHATIDYLCHOLINE ACYLTRANSFERASE 2 | 1 | 387 | 0.0e+00 |
| 1 | g14139.t3 | Pfam | PF01553 | Acyltransferase | 11 | 120 | 0.0e+00 |
| 6 | g14139.t3 | SMART | SM00563 | plsc_2 | 24 | 132 | 0.0e+00 |
| 4 | g14139.t3 | SUPERFAMILY | SSF69593 | Glycerol-3-phosphate (1)-acyltransferase | 3 | 196 | 0.0e+00 |
| 5 | g14139.t3 | SUPERFAMILY | SSF47473 | EF-hand | 250 | 373 | 0.0e+00 |
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.
