General information for g15322.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 g15322 is located on chr_4: 4959648..4963767 (+ 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 | g15322 | g15322.t1 | isoform | g15322.t1 | 4959648 | 4963767 |
| chr_4 | g15322 | g15322.t1 | exon | g15322.t1.exon1 | 4959648 | 4959785 |
| chr_4 | g15322 | g15322.t1 | cds | g15322.t1.CDS1 | 4959648 | 4959785 |
| chr_4 | g15322 | g15322.t1 | exon | g15322.t1.exon2 | 4961426 | 4962068 |
| chr_4 | g15322 | g15322.t1 | cds | g15322.t1.CDS2 | 4961426 | 4962068 |
| chr_4 | g15322 | g15322.t1 | exon | g15322.t1.exon3 | 4962228 | 4962355 |
| chr_4 | g15322 | g15322.t1 | cds | g15322.t1.CDS3 | 4962228 | 4962355 |
| chr_4 | g15322 | g15322.t1 | exon | g15322.t1.exon4 | 4962432 | 4962901 |
| chr_4 | g15322 | g15322.t1 | cds | g15322.t1.CDS4 | 4962432 | 4962901 |
| chr_4 | g15322 | g15322.t1 | exon | g15322.t1.exon5 | 4962971 | 4963284 |
| chr_4 | g15322 | g15322.t1 | cds | g15322.t1.CDS5 | 4962971 | 4963284 |
| chr_4 | g15322 | g15322.t1 | exon | g15322.t1.exon6 | 4963343 | 4963767 |
| chr_4 | g15322 | g15322.t1 | cds | g15322.t1.CDS6 | 4963343 | 4963767 |
| chr_4 | g15322 | g15322.t1 | TTS | g15322.t1 | 4963831 | 4963831 |
| chr_4 | g15322 | g15322.t1 | TSS | g15322.t1 | NA | NA |
Sequences
>g15322.t1 Gene=g15322 Length=2118
ATGGGAGGAAATTTTACTGAATCATGTGTTTATAATATTTTAAGTGCAGTGACATTTGTT
TATGACTTAGTCACACTTCCACTTTATTATATTATACAGCAACCATGGAAGGTTATAGAG
CGGTCTGAAAGGAAGAAAGGTGAACTTATTAGTGGTGACAATAACCAGGTTACTTACAAA
TCACTACTTCCTATTCGTTCTGAACATGCTCTTGTTGTTCGTGAAAATGCTGACACTTTG
GAAAAAGTTTTTAATTTGGTAGCAAAAACTCATGCAAATAAAAATTGTTTGGGAACACGT
GAGATTTTGAGTGAAGAAGAAGAGCGACAATCAGATGGAAAAGTGTTGAAAAAATATCAA
ATGGGCGAATATCGTTGGAGAACTTTCAATGAAACAAATTATGAAGCAGATTGTTTTGGC
AAAGGAATGCGTGAATTGGGAGTTCAACCTCGAGATCGAGTTGCAATTTTTGCTGAAACT
CGTGCAGAATGGATGATTGCAGCTCAAGGATTTTTCAAGCATGCTTGTGGGATTGCAACA
ATTTATGCGACACTTGGTGAAGATGGAATTGTTTATGCCATAAATCAAACTGAAGTCAGT
GTTATTGTCACATCACATGATTTACTGCCAAAGCTTAAAAATGTTATTAAAGATTTGCCA
AAAGTTAAAACAATCGTTTATTTTGAAGATCAACTTTATAAAACAAATATTGACGGACTT
GAAAGTGTAAAAGTTTTGCCTTATAAGGAAGTTGTTGAAATGGGAAAAAAGAGTAAAATT
GAAAACACACCGCCTTCTAAAAAAGATTTGGCAATTTTGATGTACACTTCAGGATCAACT
GGTGTTCCCAAGGGTGTTTTAATTTCTCATGGAAATTTATTGGGTACAATGAAAGGTTTC
CTTGACTTCTTCGATGTGACATCCAATGACGTCTTTCTTGGTCTTCTTCCTCTTGCACAT
TGTTATGAACTTTTAGCTGAATGTTCAGCTATGCTTGCTGGTGTTCCAATTGGTTATTCA
ACACCTTTGACACTTATCGATTCAAGTCCAAAAATAATGAAAGGCTGCATCGGTGATGCT
CGAGTTTTAAAACCAACAGTCATGACATCTGTTCCATTATTGCTGGATAGAATTGTCAAA
GGTATTAGAGACAAAGTCAATAGTGGTCCAGCAATAAGACGAGCACTTTTCGGTTTCTGT
TACAAATACAAAAATAAATGGATGCAAAAAGGCTACAGTACACCAATTGTTGATGCAATT
GTTTTTAAAAAAGTTGCTGCTATTATTGGTGGTAAAATGAGAGCAATGATTAGCGGTGGT
GCACCATTAAGTCCTGAAACACATAATACTATCAGAATTTGCCTTTGTGTAAACATGCGT
CAAGGATTTGGTTGTACAGAAACAACAGCAGGAGGTCCAGTAATGGATACTGAAGATATG
TCAGTAGGAAGATCAGGCTGTCCAGCAACAACAAGTCATGTAAGACTTGTAAATTGGGAA
GAAGGAAATTATTATGTTACAAATAGACCAAATCCACAAGGTGAACTTATTATTGGCGGT
GAAAATGTCACAGATGGATATTTCAAAATGCCTGAAGAAACAAAAGCTGCTTTCTTTGAA
GAAGACGGTCGAAGATGGTTTAAAACTGGAGACGTTGCTGAGATTCATAAAGATGGAAGC
ATTAAAATTATTGATCGCAAAAAAGACCTCGTAAAATTGCAACATGGTGAATATTTATCA
CTTGGTCGAATTGAATCAGAACTCAAAACATGTCAAGTGGTTGAAAATATTTGCATTTAT
GCAGAATCAACTAAAACTTATTGCATTGCATTAGTTCAACCATCAGAGAAAGGTTTGAGT
GATTTGGCAGCAAGCATTGGCATTAAAGAGTCATTTGAGCAACTTTGTCGTAACAAAGAA
GTCATAAAAGCAGTAACAAAATGCATTGCTGATTATGGAAAACGTCGTGGTCTCAACAAG
TTTGAAATTCCAACAAAAATTTCACTTTGTGAAGACTTATGGACACCTGATAGTGGACTT
GTTACAGCTGCTTTCAAAATTAAAAGAAAAGAAATTTTAGAAAAGTACAAGAATGATATT
AAAAGACTTTATGATTAA
>g15322.t1 Gene=g15322 Length=705
MGGNFTESCVYNILSAVTFVYDLVTLPLYYIIQQPWKVIERSERKKGELISGDNNQVTYK
SLLPIRSEHALVVRENADTLEKVFNLVAKTHANKNCLGTREILSEEEERQSDGKVLKKYQ
MGEYRWRTFNETNYEADCFGKGMRELGVQPRDRVAIFAETRAEWMIAAQGFFKHACGIAT
IYATLGEDGIVYAINQTEVSVIVTSHDLLPKLKNVIKDLPKVKTIVYFEDQLYKTNIDGL
ESVKVLPYKEVVEMGKKSKIENTPPSKKDLAILMYTSGSTGVPKGVLISHGNLLGTMKGF
LDFFDVTSNDVFLGLLPLAHCYELLAECSAMLAGVPIGYSTPLTLIDSSPKIMKGCIGDA
RVLKPTVMTSVPLLLDRIVKGIRDKVNSGPAIRRALFGFCYKYKNKWMQKGYSTPIVDAI
VFKKVAAIIGGKMRAMISGGAPLSPETHNTIRICLCVNMRQGFGCTETTAGGPVMDTEDM
SVGRSGCPATTSHVRLVNWEEGNYYVTNRPNPQGELIIGGENVTDGYFKMPEETKAAFFE
EDGRRWFKTGDVAEIHKDGSIKIIDRKKDLVKLQHGEYLSLGRIESELKTCQVVENICIY
AESTKTYCIALVQPSEKGLSDLAASIGIKESFEQLCRNKEVIKAVTKCIADYGKRRGLNK
FEIPTKISLCEDLWTPDSGLVTAAFKIKRKEILEKYKNDIKRLYD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g15322.t1 | Gene3D | G3DSA:3.40.50.12780 | - | 83 | 400 | 3.9E-48 |
| 7 | g15322.t1 | Gene3D | G3DSA:3.40.50.12780 | - | 423 | 570 | 1.5E-28 |
| 2 | g15322.t1 | PANTHER | PTHR43272:SF5 | ACYL-COA SYNTHETASE LONG-CHAIN, ISOFORM J | 71 | 704 | 2.5E-213 |
| 3 | g15322.t1 | PANTHER | PTHR43272 | LONG-CHAIN-FATTY-ACID–COA LIGASE | 71 | 704 | 2.5E-213 |
| 1 | g15322.t1 | Pfam | PF00501 | AMP-binding enzyme | 115 | 574 | 2.1E-93 |
| 6 | g15322.t1 | ProSitePatterns | PS00455 | Putative AMP-binding domain signature. | 273 | 284 | - |
| 5 | g15322.t1 | SUPERFAMILY | SSF56801 | Acetyl-CoA synthetase-like | 66 | 705 | 1.31E-105 |
| 4 | g15322.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 9 | 31 | - |
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