General information for g15321.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Long-chain-fatty-acid–CoA ligase 4.
Parent gene
- The parent gene g15321 is located on chr_4: 4953252..4956108 (- 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 | g15321 | g15321.t1 | TTS | g15321.t1 | 4953144 | 4953144 |
| chr_4 | g15321 | g15321.t1 | isoform | g15321.t1 | 4953252 | 4956108 |
| chr_4 | g15321 | g15321.t1 | exon | g15321.t1.exon1 | 4953252 | 4953676 |
| chr_4 | g15321 | g15321.t1 | cds | g15321.t1.CDS1 | 4953252 | 4953676 |
| chr_4 | g15321 | g15321.t1 | exon | g15321.t1.exon2 | 4953738 | 4953995 |
| chr_4 | g15321 | g15321.t1 | cds | g15321.t1.CDS2 | 4953738 | 4953995 |
| chr_4 | g15321 | g15321.t1 | exon | g15321.t1.exon3 | 4954422 | 4954947 |
| chr_4 | g15321 | g15321.t1 | cds | g15321.t1.CDS3 | 4954422 | 4954947 |
| chr_4 | g15321 | g15321.t1 | exon | g15321.t1.exon4 | 4955102 | 4955178 |
| chr_4 | g15321 | g15321.t1 | cds | g15321.t1.CDS4 | 4955102 | 4955178 |
| chr_4 | g15321 | g15321.t1 | exon | g15321.t1.exon5 | 4955240 | 4955290 |
| chr_4 | g15321 | g15321.t1 | cds | g15321.t1.CDS5 | 4955240 | 4955290 |
| chr_4 | g15321 | g15321.t1 | exon | g15321.t1.exon6 | 4955382 | 4956024 |
| chr_4 | g15321 | g15321.t1 | cds | g15321.t1.CDS6 | 4955382 | 4956024 |
| chr_4 | g15321 | g15321.t1 | exon | g15321.t1.exon7 | 4956085 | 4956108 |
| chr_4 | g15321 | g15321.t1 | cds | g15321.t1.CDS7 | 4956085 | 4956108 |
| chr_4 | g15321 | g15321.t1 | TSS | g15321.t1 | NA | NA |
Sequences
>g15321.t1 Gene=g15321 Length=2004
ATGACAATATCAAAAAGAGTTAAAGCAAAATGCATCAGCAGTGACAATAATCAAGTTACT
TACAAATCAATTTTGCCAACTCAAGCTACAAGCAAACTTTTAATCCGTGAAAATGTCGAC
ACATTAGAGAAAATGTTTAATTTAGTAACAAAAATCCACGGAAATAAAAATTGTTTAGGA
ACACGTGAAATTTTGAGTGAAGAAGAAGAGCGACAATCAGATGGAAAAGTGTTGAAAAAA
TATCAAATGGGCGAATATCGATGGAGAACTTTCAATGAAACAAATTATGAAGCTGATTGT
TTTGGCAAAGGAATGCGTGAATTGGGAGTTCAACCTCGAGATCGAGTTGCAATTTTTGCT
GAAACTCGTGCAGAATGGATGATTGCAGCTCAAGGATTTTTCAAGCATGCTTGTGGAATC
GCAACAATTTATGCGACACTTGGTGAAGATGGAATTGTTTATGCCATAAATCAAACTGAA
GTCAGTGTCATTGTCACATCACACGATCTTCTGTCAAAGCTTAAAAATGTTATTAAAGAT
TTGCCAAAAGTTAAAACAATTGTTTATTTTGAAGATCAACTTTATAAAACAAATATTGAC
GGACTTGAAAGTGTAAATGTTTTACCTTATAAGGAAGTTGTTGAAATGGGAAAAAAGAGT
GGAATTGAAAATACACCACCAAATAAATCTGATTTGGCAATTTTAATGTACACGAGTGGT
TCAACTGGAAATCCTAAAGGAGTAATGTTGACACATAACAATCTTTTATCAACAATGAAA
GGTTTTCTTGATTCTATTGAAACAAAACCAACTGATGTAATGCTTGGTTTTCTTCCACTT
GCACATTCTTTTGAGCTTCTGGCTGAATGTTCAGCTATGCTTGCTGGCGTTCCAATTGGT
TATTCAACACCTTTAACACTTATCGATTCAAGTCCAAAGATTAAAAAAGGCTGCGTTGGT
GATGCAAAAGTTTTAAAACCAACAGCAATGGCGATTGTTCCATTAATTCTTGATAGAATT
GTCAAAGGCATAAATGATCGTGTAAATAATGGAAGTCCAATACAGAAAACTGTTTTTAAT
TTCGCTTATAATTATAAAAGAAAATGGCACAGAAGAGGCTACAAAACACCAATAACTGAT
AGAATTGTATTTAAGAAAATTGGTGAACTGATGGGAGGAAAAATGAGAGCAATGATAAGT
GGTGGTGCACCATTGAGTCCTGAAACTCATGAAAAAGTTCGACTTTGTTTATGCATTGTT
ATGGCACAAGGTTATGGATTAACTGAGACTTCAGCTGGTGGAACTGTCATGGAAGAAACT
GATATAACAACAGGTCGATCGGGTGCAGCATGTACAGTGTGTTTAGTTCGACTTGTAAAC
TGGGAAGAAGGAAATTATTTTGTCACGAACAAACCATATCCACAAGGTGAAGTCATTTTA
GGTGGCGAGAACGTTGCTGAAGGATATTTCAAAATGCCTGAAGAAACTGCTGAAAACTTT
TTCGTTGAAGACGGAATTAGATGGTTCCGAACTGGAGATATTGCTGAGATTCATAAAGAT
GGAAGCATTAAAATTATTGATCGCAAAAAAGACCTCGTAAAATTGCAACATGGTGAATAT
TTATCACTTGGTCGAATTGAATCAGAACTCAAAACATGTCAAGTGGTTGAAAATATTTGC
ATTTATGCAGAATCAACTAAAACTTATTGCATTGCATTAGTTCAACCATCAGAGAAAGGT
TTGAGTGATTTAGCAGCAAGCATTGGCATTAAAGAGTCATTTGAGCAACTTTGTCGTAAT
AAAGAAGTCATAAAAGCAGCAACAAAATGCATTGCTGATTATGGAAAACGTCGTGGTCTC
AACAAGTTTGAAATTCCAACAAAAATTTCACTTTGTGAAGACTTATGGACACCTGATAGT
GGACTTGTTACAGCTGCTTTCAAAATTAAAAGAAAGGAAGTTCAAAACAAATATAAAGAC
GTTATTGCACAAATTTATACTTAA
>g15321.t1 Gene=g15321 Length=667
MTISKRVKAKCISSDNNQVTYKSILPTQATSKLLIRENVDTLEKMFNLVTKIHGNKNCLG
TREILSEEEERQSDGKVLKKYQMGEYRWRTFNETNYEADCFGKGMRELGVQPRDRVAIFA
ETRAEWMIAAQGFFKHACGIATIYATLGEDGIVYAINQTEVSVIVTSHDLLSKLKNVIKD
LPKVKTIVYFEDQLYKTNIDGLESVNVLPYKEVVEMGKKSGIENTPPNKSDLAILMYTSG
STGNPKGVMLTHNNLLSTMKGFLDSIETKPTDVMLGFLPLAHSFELLAECSAMLAGVPIG
YSTPLTLIDSSPKIKKGCVGDAKVLKPTAMAIVPLILDRIVKGINDRVNNGSPIQKTVFN
FAYNYKRKWHRRGYKTPITDRIVFKKIGELMGGKMRAMISGGAPLSPETHEKVRLCLCIV
MAQGYGLTETSAGGTVMEETDITTGRSGAACTVCLVRLVNWEEGNYFVTNKPYPQGEVIL
GGENVAEGYFKMPEETAENFFVEDGIRWFRTGDIAEIHKDGSIKIIDRKKDLVKLQHGEY
LSLGRIESELKTCQVVENICIYAESTKTYCIALVQPSEKGLSDLAASIGIKESFEQLCRN
KEVIKAATKCIADYGKRRGLNKFEIPTKISLCEDLWTPDSGLVTAAFKIKRKEVQNKYKD
VIAQIYT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g15321.t1 | Gene3D | G3DSA:3.40.50.12780 | - | 58 | 365 | 1.7E-47 |
| 6 | g15321.t1 | Gene3D | G3DSA:3.40.50.12780 | - | 381 | 526 | 1.9E-29 |
| 2 | g15321.t1 | PANTHER | PTHR43272:SF5 | ACYL-COA SYNTHETASE LONG-CHAIN, ISOFORM J | 33 | 666 | 7.2E-214 |
| 3 | g15321.t1 | PANTHER | PTHR43272 | LONG-CHAIN-FATTY-ACID–COA LIGASE | 33 | 666 | 7.2E-214 |
| 1 | g15321.t1 | Pfam | PF00501 | AMP-binding enzyme | 77 | 536 | 3.6E-96 |
| 5 | g15321.t1 | ProSitePatterns | PS00455 | Putative AMP-binding domain signature. | 235 | 246 | - |
| 4 | g15321.t1 | SUPERFAMILY | SSF56801 | Acetyl-CoA synthetase-like | 30 | 666 | 4.32E-104 |
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 transcript has been annotated with K01897 (long-chain acyl-CoA synthetase)
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. There were no conditions that were differentially expressed