General information for g9356.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 g9356 is located on chr_1: 2209032..2219717 (- 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 | g9356 | g9356.t1 | TTS | g9356.t1 | 2208979 | 2208979 |
| chr_1 | g9356 | g9356.t1 | isoform | g9356.t1 | 2209032 | 2211132 |
| chr_1 | g9356 | g9356.t1 | exon | g9356.t1.exon1 | 2209032 | 2210329 |
| chr_1 | g9356 | g9356.t1 | cds | g9356.t1.CDS1 | 2209032 | 2210329 |
| chr_1 | g9356 | g9356.t1 | exon | g9356.t1.exon2 | 2210388 | 2210707 |
| chr_1 | g9356 | g9356.t1 | cds | g9356.t1.CDS2 | 2210388 | 2210707 |
| chr_1 | g9356 | g9356.t1 | exon | g9356.t1.exon3 | 2210760 | 2210801 |
| chr_1 | g9356 | g9356.t1 | cds | g9356.t1.CDS3 | 2210760 | 2210801 |
| chr_1 | g9356 | g9356.t1 | exon | g9356.t1.exon4 | 2210939 | 2211132 |
| chr_1 | g9356 | g9356.t1 | cds | g9356.t1.CDS4 | 2210939 | 2211132 |
| chr_1 | g9356 | g9356.t1 | TSS | g9356.t1 | 2211173 | 2211173 |
Sequences
>g9356.t1 Gene=g9356 Length=1854
ATGATTGAAATTCAAAGTGAAAAATTAAAATCGACTGAAAATCGTTTTGCTGTTTTACCA
AGTGATCATGTGAAAATCTTCACAAGTGAAAATGAAATTTCACCTCGTGATGTGCAAACA
ATTCCTGAAGTATTCGATCAAATTTGTGAGAAATTCAGCAATGCAATCACAATGCTTTAT
GTTCAAAGTCAAAGTGTCGAATGGTTTTTATCTTATTTGGCTGCAATTCATGCTGGTGGA
ATAATAACTGGAATTTATACAACAAATTCACCTGATGCTTGCTTTCATATTCTTGAAAGT
TCAAAGGCTAACATTGTTGTTGTTGACAATGACGAACAATTGCAGAAAATTCTTAAAATC
AAAGACAAATTGCCAAATTTAAAAGCAATTGTTCAAACTTTTCCATCGAAAATTTCAACT
GATGAGAAAATTTTTAAATGGCAAGAAGTTGAAATGATGGAAATTGATGATGAAATTGTA
GAAATTTATAAAGAAAGACTTTCGAAAATCAAGGCTAATGCATGTTGTAACTTTATTTAT
ACTTCAGGAACAACTGGAAATCCAAAAGGAGTCATGTTAAGTCACGATAATCTCGTCTGG
AATGCTTATAATTTGGTTGATTTAGTTAAAACATTTAAATTCGGTGAAGAAGTTATAGTT
TCGTATCTACCGCTCAGTCATATTGCTGGATCACTTGCAGATATCGTATTTTCAATGTTG
ATTGCTGCTACAGTTTATTTTGCTGATGAAAATGCATTAAAAGGAACTTTGCTCAAAACA
TTGACAGATGCAAGACCAACATTTTTCTTAGGTGTTCCAAGAGTTTATGAGAAAATTTAT
GAAAATTTGACAAAAAAATTCAATGAAAGCACTGGAATTCAAAGTACTTTATTATCATTA
GCAAGAGACGCAGCATTGAATTATCATTTAAATGAAATCAAAGGTCAAAGTGGAAGTTCA
ATAAAGTATATGCTTTCAAAAATACTTTTGAATAAAATTAAAGCAGCTTTAGGGTTTGAT
CGTGTACATACTTTGACAATTGGTGCTGCTCCTGCTAATCCGGATGTTTTTGACTTCTTT
TTAAGTCTTGACTTGAAATTGCTTGAAGGCTATGGCTTATCTGAAACTGCAGCTGGTGTG
CTTTGTAATGCACCTAATGAAATAAAATTAGGAAGTGTTGGGAAAGTTCCTTCACATAAT
GAAGTTAAAATAAAAGATTCAGATCAGAATGGAGTTGGTGAAATTTGTTGTCGTGGTAGA
ATGACATTTATGGGATATTTGAATGATATTGAGAAGACAATGGAAGTTATTGATAAAGAT
TTTTGGTTTAATACTGGCGATGTTGGATATTTTGATGATGAAGGATTTTTATTTATAACT
GGAAGAACTAAAGAGCTGATAGTATCATCAGGTGGTGAAAATATTCCTTATCTTTTGATT
GAAAACACTGTGAAAAATGAATGTGAAGCAATTTCAAATGCTTTCTTAGTTGGTGACAAA
AGAAAATTTCTCACAATGTTGATAACTTTGAAAACAAAAATGGACCAAAATGGTGCACCG
ATTGATGAACTTGCTGATGAAAGTTTGAGTTTAATGAATGATTTAGGCTTGAATTATGTT
TCATTGAGTGAAATTCTCAATGCTGGACCTGATAAGAAAGTTTTAGCTGCAATTCAATCA
GCAATCGATCGTGCAAATGAAAAAGCAATTTCAAGAGCTCAGAAAGTTCAGAAATTTGCA
ATTTTACCAAATGATTTTAGTTTATCAACTGGAGAATTGAGTTCAACATTGAAACTGAAA
AGACATTTTGTGCTTGAAAAATATAAGAATATTATTGATGAATTTTATTTGTGA
>g9356.t1 Gene=g9356 Length=617
MIEIQSEKLKSTENRFAVLPSDHVKIFTSENEISPRDVQTIPEVFDQICEKFSNAITMLY
VQSQSVEWFLSYLAAIHAGGIITGIYTTNSPDACFHILESSKANIVVVDNDEQLQKILKI
KDKLPNLKAIVQTFPSKISTDEKIFKWQEVEMMEIDDEIVEIYKERLSKIKANACCNFIY
TSGTTGNPKGVMLSHDNLVWNAYNLVDLVKTFKFGEEVIVSYLPLSHIAGSLADIVFSML
IAATVYFADENALKGTLLKTLTDARPTFFLGVPRVYEKIYENLTKKFNESTGIQSTLLSL
ARDAALNYHLNEIKGQSGSSIKYMLSKILLNKIKAALGFDRVHTLTIGAAPANPDVFDFF
LSLDLKLLEGYGLSETAAGVLCNAPNEIKLGSVGKVPSHNEVKIKDSDQNGVGEICCRGR
MTFMGYLNDIEKTMEVIDKDFWFNTGDVGYFDDEGFLFITGRTKELIVSSGGENIPYLLI
ENTVKNECEAISNAFLVGDKRKFLTMLITLKTKMDQNGAPIDELADESLSLMNDLGLNYV
SLSEILNAGPDKKVLAAIQSAIDRANEKAISRAQKVQKFAILPNDFSLSTGELSSTLKLK
RHFVLEKYKNIIDEFYL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g9356.t1 | Gene3D | G3DSA:3.40.50.12780 | - | 26 | 298 | 0 |
| 6 | g9356.t1 | Gene3D | G3DSA:3.40.50.12780 | - | 318 | 462 | 0 |
| 2 | g9356.t1 | PANTHER | PTHR43272 | LONG-CHAIN-FATTY-ACID–COA LIGASE | 64 | 616 | 0 |
| 3 | g9356.t1 | PANTHER | PTHR43272:SF32 | LONG-CHAIN-FATTY-ACID–COA LIGASE ACSBG2 | 64 | 616 | 0 |
| 1 | g9356.t1 | Pfam | PF00501 | AMP-binding enzyme | 64 | 469 | 0 |
| 4 | g9356.t1 | SUPERFAMILY | SSF56801 | Acetyl-CoA synthetase-like | 34 | 616 | 0 |
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