General information for g9380.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Very long-chain-fatty-acid–CoA ligase bubblegum.
Parent gene
- The parent gene g9380 is located on chr_1: 2326116..2326688 (+ 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 | g9380 | g9380.t1 | TSS | g9380.t1 | 2324563 | 2324563 |
| chr_1 | g9380 | g9380.t1 | isoform | g9380.t1 | 2324610 | 2326688 |
| chr_1 | g9380 | g9380.t1 | exon | g9380.t1.exon1 | 2324610 | 2324799 |
| chr_1 | g9380 | g9380.t1 | cds | g9380.t1.CDS1 | 2324610 | 2324799 |
| chr_1 | g9380 | g9380.t1 | exon | g9380.t1.exon2 | 2324889 | 2324964 |
| chr_1 | g9380 | g9380.t1 | cds | g9380.t1.CDS2 | 2324889 | 2324964 |
| chr_1 | g9380 | g9380.t1 | exon | g9380.t1.exon3 | 2325017 | 2325336 |
| chr_1 | g9380 | g9380.t1 | cds | g9380.t1.CDS3 | 2325017 | 2325336 |
| chr_1 | g9380 | g9380.t1 | exon | g9380.t1.exon4 | 2325391 | 2326688 |
| chr_1 | g9380 | g9380.t1 | cds | g9380.t1.CDS4 | 2325391 | 2326688 |
| chr_1 | g9380 | g9380.t1 | TTS | g9380.t1 | 2326910 | 2326910 |
Sequences
>g9380.t1 Gene=g9380 Length=1884
ATGAAAGAAATTCAAAGTGAAAAATTAAAATCGACTGAAAATCGTTTTGCTGTTTCACTA
ACCGATCACGTGAAAATCTTCACAAGTGAAAATGAAATTTCACCACGTGATGTACAAACA
ATTCCTGAAGTATTCGATCAAATTTGTGAGAAATTCAGCAATCACAATGCTTTGATGTTC
AAAGTCAAAGAATTCGGAACTGTTGCAGTTTTAGCTTCAAATAGTGTCGAATGGTTTTTA
TCTTATTTGGCTGCAATTCATGCTGGTGGAATAATAACTGGAATTTATACAACAAATTCA
CCTGATGCTTGCCATCATATTCTTGAAAGTTCAAAGGCTAACATTGTTGTTGTTGACAAT
GATGAACAATTGCAGAAAATTCTTAAAATCAAAGACAAATTGCCAAATTTAAAAGCAATT
GTTCAAACTTTTCCATCAAAAATTTCAACTGATGAGAAAATTTATAAATGGCAAGAAGTT
GAAATGATGGAAATTGATGATGAAATTGTTGAAATTTATCAAGAAAGACTTTCGAAAATC
AAAGCTAATGCATGTTGTAATATCATTTATACTTCAGGAACAACTGGTAATCCAAAAGGA
GTAATGCTTAGTCACGATAATCTCGTTTGGAATGCTCAAAATTTTGCTAATGCACATGGA
ACTTTTAAATTAGGTGAAGAAATTATGGTTACTTATCTACCACTCTCACACATTGTCGGA
AGTATCAATGATATAATTGCACCATTACTGATTGCTTCAACAATTTATTTTGCTGATGAA
AATGCATTAAAAGGAACTTTGTTAAAAACTTTAACTGAAGCTAGACCAACAAATTTTGTG
AGCATTCCAAGAGTTTATGAGAAAATTTATGAAAATTTAACGAAAAAGTTGAATGCAACA
GGTGTAATCAAAGGCACTTTGATATCATGGGCAAGAAATGCAGCATTGAATTATCATTTG
AATGAAATCAAAGGTCAAAGTGGAAGTTCAATAAAATATATGCTAGCTAAGCCATTTTTG
AATAAAATTAAAGCAGCTTTAGGCTTTGATCGTGTTCATACCTTGATGGTTGGTGCAGCT
CCAACAAGTAAAGAAATTTTTGAATTCTTCCTTAGCTTGGATTTAAAACTGTTTGAAGCT
TATGGATCATCTGAAACTGCAGCAGTTATAACATGTAATACTTCAACTGATATGAAAATA
GGCAGTGTAGGAAAAGCTCCTTCAAACATTGAAGTTAAAATAAAAGATCCAGATGAGAAT
GGAGTTGGTGAAATTTATTGTCGTGGTAGAATGACATTTATGGGATATTTGAATGATATT
GAGAAGACAATGGAAGTGATTGATAAAGATTTTTGGTTTAATACTGGCGATGTTGGATAT
TTTGATGATGAAGAATTTTTATTTATAACTGGAAGAACTAAAGAGCTGATAGTATCATCA
GGTGGTGAAAATATTCCTTATCTTTTGATTGAAAATACTGTGAAAAATGAATGTGAAGCA
ATTTCAAATGCTTTCTTAGTTGGTGACAAAAGAAAATTTCTGACAATGTTGATAACTTTG
AAAACTAAAATGGACCAAAATGGTGCAGCAACTGATGAACTTGCTGATGAAAGTTTGACT
TTAATGAAAGATTTAGGTTTGAATTATGTTTCATTGAGTGAAGTTCTCAATGTTGGACCT
GATAAGAAAGTTTTAACTGCAATTCAATCAGCAATCGATCGTGCAAATGAAAAAGCAATT
TCAAGAGCTCAAAAAGTTCAAAAATTTGCAATTTTACCAAATGATTTTAGTTTATCAACT
GGAGAATTGAGTTCAACATTGAAGCTGAAAAGACATTTTGTTCTAGAAAAATATAAGAAA
ATTATTGATGAATTTTATTTGTAA
>g9380.t1 Gene=g9380 Length=627
MKEIQSEKLKSTENRFAVSLTDHVKIFTSENEISPRDVQTIPEVFDQICEKFSNHNALMF
KVKEFGTVAVLASNSVEWFLSYLAAIHAGGIITGIYTTNSPDACHHILESSKANIVVVDN
DEQLQKILKIKDKLPNLKAIVQTFPSKISTDEKIYKWQEVEMMEIDDEIVEIYQERLSKI
KANACCNIIYTSGTTGNPKGVMLSHDNLVWNAQNFANAHGTFKLGEEIMVTYLPLSHIVG
SINDIIAPLLIASTIYFADENALKGTLLKTLTEARPTNFVSIPRVYEKIYENLTKKLNAT
GVIKGTLISWARNAALNYHLNEIKGQSGSSIKYMLAKPFLNKIKAALGFDRVHTLMVGAA
PTSKEIFEFFLSLDLKLFEAYGSSETAAVITCNTSTDMKIGSVGKAPSNIEVKIKDPDEN
GVGEIYCRGRMTFMGYLNDIEKTMEVIDKDFWFNTGDVGYFDDEEFLFITGRTKELIVSS
GGENIPYLLIENTVKNECEAISNAFLVGDKRKFLTMLITLKTKMDQNGAATDELADESLT
LMKDLGLNYVSLSEVLNVGPDKKVLTAIQSAIDRANEKAISRAQKVQKFAILPNDFSLST
GELSSTLKLKRHFVLEKYKKIIDEFYL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g9380.t1 | Gene3D | G3DSA:3.40.50.12780 | - | 39 | 306 | 2.1E-46 |
| 6 | g9380.t1 | Gene3D | G3DSA:3.40.50.12780 | - | 326 | 475 | 4.9E-36 |
| 2 | g9380.t1 | PANTHER | PTHR43272 | LONG-CHAIN-FATTY-ACID–COA LIGASE | 62 | 626 | 3.6E-205 |
| 3 | g9380.t1 | PANTHER | PTHR43272:SF32 | LONG-CHAIN-FATTY-ACID–COA LIGASE ACSBG2 | 62 | 626 | 3.6E-205 |
| 1 | g9380.t1 | Pfam | PF00501 | AMP-binding enzyme | 61 | 479 | 2.8E-85 |
| 5 | g9380.t1 | ProSitePatterns | PS00455 | Putative AMP-binding domain signature. | 188 | 199 | - |
| 4 | g9380.t1 | SUPERFAMILY | SSF56801 | Acetyl-CoA synthetase-like | 34 | 626 | 3.66E-93 |
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. There were no conditions that were differentially expressed