General information for g9356.t5
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.t5 | TTS | g9356.t5 | 2208979 | 2208979 |
| chr_1 | g9356 | g9356.t5 | isoform | g9356.t5 | 2209032 | 2219717 |
| chr_1 | g9356 | g9356.t5 | exon | g9356.t5.exon1 | 2209032 | 2210329 |
| chr_1 | g9356 | g9356.t5 | cds | g9356.t5.CDS1 | 2209032 | 2210329 |
| chr_1 | g9356 | g9356.t5 | exon | g9356.t5.exon2 | 2210388 | 2210707 |
| chr_1 | g9356 | g9356.t5 | cds | g9356.t5.CDS2 | 2210388 | 2210490 |
| chr_1 | g9356 | g9356.t5 | exon | g9356.t5.exon3 | 2210760 | 2211257 |
| chr_1 | g9356 | g9356.t5 | exon | g9356.t5.exon4 | 2219285 | 2219717 |
| chr_1 | g9356 | g9356.t5 | TSS | g9356.t5 | NA | NA |
Sequences
>g9356.t5 Gene=g9356 Length=2549
TTATTTTTTTAAACTATTCAACCTTATTCTTGAATAAAGTTCATCAATAATTTTCTTATA
TTTCTTAAGCACAAAATGTCTTTTCAGCTTCAATGTTGAACTCAATTCTCCAGTTGATAA
ACTAAAATCATTTGGTAAAATTGCAAATTTCTGAATTTTCTGAGCTCTTGAAATTGCTTT
TTCATTTGCACGATCGATTGCTGATTGAATTGCAGTTAAAACTTTCTTATCAGGTCCAGC
ATTGAGAATTTCACTCAATGAAACATAATTCAAACCTAAATCTTTCATTAAAGTCAAACT
TTCATCAGCAAGTTCATCAGTTGGTGTACCATTTTGGTCCATTTTAGTTTTCAAAGTTAT
CAACATTGTCAGAAATTTTTTTTTGTCACCAACTAAGAAAGCATTTGAAATTGCTTCACA
TTCATTTTTCACATTGTTTTCAGTCTTGAATTGAAATAATTAAAGATGAAGAAGAAATAT
TAAAGATTCTTAAATTGAAAGATTATCAATTATACTCAGTTTTTATAGTGTTACGGATGA
ACAAAGTCCTCTATTAAAATGATTGAAATTCAAAGTGAAAAATTAAAATCGACTGAAAAT
CGTTTTGCTGTTTTACCAAGTGATCATGTGAAAATCTTCACAAGTGAAAATGAAATTTCA
CCTCGTGATGTGCAAACAATTCCTGAAGTATTCGATCAAATTTGTGAGAAATTCAGCAAT
GCAATCACAATGCTTTATGTTCAAAGTCAAAGGTGAAAATGATTGGAATGCAATCACTTA
TGGAGAATACAAAAATCGAGTTGAAAAAATTGCAAAATCTTTCATTAAAATTGGACTTGA
AGAATTCGGAACTGTTGCAGTTTTAGCTTCAAATAGTGTCACCAAATAGTGTCGAATGGT
TTTTATCTTATTTGGCTGCAATTCATGCTGGTGGAATAATAACTGGAATTTATACAACAA
ATTCACCTGATGCTTGCTTTCATATTCTTGAAAGTTCAAAGGCTAACATTGTTGTTGTTG
ACAATGACGAACAATTGCAGAAAATTCTTAAAATCAAAGACAAATTGCCAAATTTAAAAG
CAATTGTTCAAACTTTTCCATCGAAAATTTCAACTGATGAGAAAATTTTTAAATGGCAAG
AAGTTGAAATGATGGAAATTGATGATGAAATTGTAGAAATTTATAAAGAAAGACTTTCGA
AAATCAAGGCTAATGCATGTTGTAACTTTATTTATACTTCAGGAACAACTGGAAATCCAA
AAGGAGTCATGTTAAGTCACGATAATCTCGTCTGGAATGCTTATAATTTGGTTGATTTAG
TTAAAACATTTAAATTCGGTGAAGAAGTTATAGTTTCGTATCTACCGCTCAGTCATATTG
CTGGATCACTTGCAGATATCGTATTTTCAATGTTGATTGCTGCTACAGTTTATTTTGCTG
ATGAAAATGCATTAAAAGGAACTTTGCTCAAAACATTGACAGATGCAAGACCAACATTTT
TCTTAGGTGTTCCAAGAGTTTATGAGAAAATTTATGAAAATTTGACAAAAAAATTCAATG
AAAGCACTGGAATTCAAAGTACTTTATTATCATTAGCAAGAGACGCAGCATTGAATTATC
ATTTAAATGAAATCAAAGGTCAAAGTGGAAGTTCAATAAAGTATATGCTTTCAAAAATAC
TTTTGAATAAAATTAAAGCAGCTTTAGGGTTTGATCGTGTACATACTTTGACAATTGGTG
CTGCTCCTGCTAATCCGGATGTTTTTGACTTCTTTTTAAGTCTTGACTTGAAATTGCTTG
AAGGCTATGGCTTATCTGAAACTGCAGCTGGTGTGCTTTGTAATGCACCTAATGAAATAA
AATTAGGAAGTGTTGGGAAAGTTCCTTCACATAATGAAGTTAAAATAAAAGATTCAGATC
AGAATGGAGTTGGTGAAATTTGTTGTCGTGGTAGAATGACATTTATGGGATATTTGAATG
ATATTGAGAAGACAATGGAAGTTATTGATAAAGATTTTTGGTTTAATACTGGCGATGTTG
GATATTTTGATGATGAAGGATTTTTATTTATAACTGGAAGAACTAAAGAGCTGATAGTAT
CATCAGGTGGTGAAAATATTCCTTATCTTTTGATTGAAAACACTGTGAAAAATGAATGTG
AAGCAATTTCAAATGCTTTCTTAGTTGGTGACAAAAGAAAATTTCTCACAATGTTGATAA
CTTTGAAAACAAAAATGGACCAAAATGGTGCACCGATTGATGAACTTGCTGATGAAAGTT
TGAGTTTAATGAATGATTTAGGCTTGAATTATGTTTCATTGAGTGAAATTCTCAATGCTG
GACCTGATAAGAAAGTTTTAGCTGCAATTCAATCAGCAATCGATCGTGCAAATGAAAAAG
CAATTTCAAGAGCTCAGAAAGTTCAGAAATTTGCAATTTTACCAAATGATTTTAGTTTAT
CAACTGGAGAATTGAGTTCAACATTGAAACTGAAAAGACATTTTGTGCTTGAAAAATATA
AGAATATTATTGATGAATTTTATTTGTGA
>g9356.t5 Gene=g9356 Length=466
MMEIDDEIVEIYKERLSKIKANACCNFIYTSGTTGNPKGVMLSHDNLVWNAYNLVDLVKT
FKFGEEVIVSYLPLSHIAGSLADIVFSMLIAATVYFADENALKGTLLKTLTDARPTFFLG
VPRVYEKIYENLTKKFNESTGIQSTLLSLARDAALNYHLNEIKGQSGSSIKYMLSKILLN
KIKAALGFDRVHTLTIGAAPANPDVFDFFLSLDLKLLEGYGLSETAAGVLCNAPNEIKLG
SVGKVPSHNEVKIKDSDQNGVGEICCRGRMTFMGYLNDIEKTMEVIDKDFWFNTGDVGYF
DDEGFLFITGRTKELIVSSGGENIPYLLIENTVKNECEAISNAFLVGDKRKFLTMLITLK
TKMDQNGAPIDELADESLSLMNDLGLNYVSLSEILNAGPDKKVLAAIQSAIDRANEKAIS
RAQKVQKFAILPNDFSLSTGELSSTLKLKRHFVLEKYKNIIDEFYL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g9356.t5 | Coils | Coil | Coil | 454 | 466 | - |
| 6 | g9356.t5 | Gene3D | G3DSA:3.40.50.12780 | - | 4 | 155 | 3.7E-26 |
| 5 | g9356.t5 | Gene3D | G3DSA:3.40.50.12780 | - | 158 | 314 | 1.0E-36 |
| 2 | g9356.t5 | PANTHER | PTHR43272 | LONG-CHAIN-FATTY-ACID–COA LIGASE | 8 | 465 | 2.8E-163 |
| 3 | g9356.t5 | PANTHER | PTHR43272:SF32 | LONG-CHAIN-FATTY-ACID–COA LIGASE ACSBG2 | 8 | 465 | 2.8E-163 |
| 1 | g9356.t5 | Pfam | PF00501 | AMP-binding enzyme | 15 | 318 | 3.6E-68 |
| 4 | g9356.t5 | SUPERFAMILY | SSF56801 | Acetyl-CoA synthetase-like | 18 | 465 | 5.1E-75 |
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