General information for g9356.t4
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.t4 | TTS | g9356.t4 | 2208979 | 2208979 |
| chr_1 | g9356 | g9356.t4 | isoform | g9356.t4 | 2209032 | 2211132 |
| chr_1 | g9356 | g9356.t4 | exon | g9356.t4.exon1 | 2209032 | 2209714 |
| chr_1 | g9356 | g9356.t4 | cds | g9356.t4.CDS1 | 2209032 | 2209714 |
| chr_1 | g9356 | g9356.t4 | exon | g9356.t4.exon2 | 2209844 | 2210329 |
| chr_1 | g9356 | g9356.t4 | cds | g9356.t4.CDS2 | 2209844 | 2210329 |
| chr_1 | g9356 | g9356.t4 | exon | g9356.t4.exon3 | 2210388 | 2210707 |
| chr_1 | g9356 | g9356.t4 | cds | g9356.t4.CDS3 | 2210388 | 2210490 |
| chr_1 | g9356 | g9356.t4 | exon | g9356.t4.exon4 | 2210760 | 2211132 |
| chr_1 | g9356 | g9356.t4 | TSS | g9356.t4 | 2211173 | 2211173 |
Sequences
>g9356.t4 Gene=g9356 Length=1862
ATGATTGAAATTCAAAGTGAAAAATTAAAATCGACTGAAAATCGTTTTGCTGTTTTACCA
AGTGATCATGTGAAAATCTTCACAAGTGAAAATGAAATTTCACCTCGTGATGTGCAAACA
ATTCCTGAAGTATTCGATCAAATTTGTGAGAAATTCAGCAATGCAATCACAATGCTTTAT
GTTCAAAGTCAAAGGTGAAAATGATTGGAATGCAATCACTTATGGAGAATACAAAAATCG
AGTTGAAAAAATTGCAAAATCTTTCATTAAAATTGGACTTGAAGAATTCGGAACTGTTGC
AGTTTTAGCTTCAAATAGTGTCACCAAATAGTGTCGAATGGTTTTTATCTTATTTGGCTG
CAATTCATGCTGGTGGAATAATAACTGGAATTTATACAACAAATTCACCTGATGCTTGCT
TTCATATTCTTGAAAGTTCAAAGGCTAACATTGTTGTTGTTGACAATGACGAACAATTGC
AGAAAATTCTTAAAATCAAAGACAAATTGCCAAATTTAAAAGCAATTGTTCAAACTTTTC
CATCGAAAATTTCAACTGATGAGAAAATTTTTAAATGGCAAGAAGTTGAAATGATGGAAA
TTGATGATGAAATTGTAGAAATTTATAAAGAAAGACTTTCGAAAATCAAGGCTAATGCAT
GTTGTAACTTTATTTATACTTCAGGAACAACTGGAAATCCAAAAGGAGTCATGTTAAGTC
ACGATAATCTCGTCTGGAATGCTTATAATTTGGTTGATTTAGTTAAAACATTTAAATTCG
GTGAAGAAGTTATAGTTTCGTATCTACCGCTCAGTCATATTGCTGGATCACTTGCAGATA
TCGTATTTTCAATGTTGATTGCTGCTACAGTTTATTTTGCTGATGAAAATGCATTAAAAG
GAACTTTGCTCAAAACATTGACAGATGCAAGACCAACATTTTTCTTAGGTGTTCCAAGAG
TTTATGAGAAAATTTATGAAAATTTGACAAAAAAATTCAATGAAAGCACTGGAATTCAAA
GTACTTTATTATCATTAGCAAGAGACGCAGCATTGAATTATCATTTAAATGAAATCAAAG
GTCAAAGTGGAAGTTCAATAAAGTATATGCTTTCAAAAATACTTTTGAATAAAATTAAAG
CAGCTTTAGGGTTTGATCGTGTACATACTTTGACAATTGGAAGTGTTGGGAAAGTTCCTT
CACATAATGAAGTTAAAATAAAAGATTCAGATCAGAATGGAGTTGGTGAAATTTGTTGTC
GTGGTAGAATGACATTTATGGGATATTTGAATGATATTGAGAAGACAATGGAAGTTATTG
ATAAAGATTTTTGGTTTAATACTGGCGATGTTGGATATTTTGATGATGAAGGATTTTTAT
TTATAACTGGAAGAACTAAAGAGCTGATAGTATCATCAGGTGGTGAAAATATTCCTTATC
TTTTGATTGAAAACACTGTGAAAAATGAATGTGAAGCAATTTCAAATGCTTTCTTAGTTG
GTGACAAAAGAAAATTTCTCACAATGTTGATAACTTTGAAAACAAAAATGGACCAAAATG
GTGCACCGATTGATGAACTTGCTGATGAAAGTTTGAGTTTAATGAATGATTTAGGCTTGA
ATTATGTTTCATTGAGTGAAATTCTCAATGCTGGACCTGATAAGAAAGTTTTAGCTGCAA
TTCAATCAGCAATCGATCGTGCAAATGAAAAAGCAATTTCAAGAGCTCAGAAAGTTCAGA
AATTTGCAATTTTACCAAATGATTTTAGTTTATCAACTGGAGAATTGAGTTCAACATTGA
AACTGAAAAGACATTTTGTGCTTGAAAAATATAAGAATATTATTGATGAATTTTATTTGT
GA
>g9356.t4 Gene=g9356 Length=423
MMEIDDEIVEIYKERLSKIKANACCNFIYTSGTTGNPKGVMLSHDNLVWNAYNLVDLVKT
FKFGEEVIVSYLPLSHIAGSLADIVFSMLIAATVYFADENALKGTLLKTLTDARPTFFLG
VPRVYEKIYENLTKKFNESTGIQSTLLSLARDAALNYHLNEIKGQSGSSIKYMLSKILLN
KIKAALGFDRVHTLTIGSVGKVPSHNEVKIKDSDQNGVGEICCRGRMTFMGYLNDIEKTM
EVIDKDFWFNTGDVGYFDDEGFLFITGRTKELIVSSGGENIPYLLIENTVKNECEAISNA
FLVGDKRKFLTMLITLKTKMDQNGAPIDELADESLSLMNDLGLNYVSLSEILNAGPDKKV
LAAIQSAIDRANEKAISRAQKVQKFAILPNDFSLSTGELSSTLKLKRHFVLEKYKNIIDE
FYL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g9356.t4 | Gene3D | G3DSA:3.40.50.12780 | - | 4 | 271 | 0 |
| 2 | g9356.t4 | PANTHER | PTHR43272 | LONG-CHAIN-FATTY-ACID–COA LIGASE | 8 | 197 | 0 |
| 4 | g9356.t4 | PANTHER | PTHR43272:SF32 | LONG-CHAIN-FATTY-ACID–COA LIGASE ACSBG2 | 8 | 197 | 0 |
| 3 | g9356.t4 | PANTHER | PTHR43272 | LONG-CHAIN-FATTY-ACID–COA LIGASE | 194 | 422 | 0 |
| 5 | g9356.t4 | PANTHER | PTHR43272:SF32 | LONG-CHAIN-FATTY-ACID–COA LIGASE ACSBG2 | 194 | 422 | 0 |
| 1 | g9356.t4 | Pfam | PF00501 | AMP-binding enzyme | 15 | 275 | 0 |
| 6 | g9356.t4 | SUPERFAMILY | SSF56801 | Acetyl-CoA synthetase-like | 18 | 422 | 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