General information for g8843.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 g8843 is located on chr_2: 33489260..33491346 (- 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_2 | g8843 | g8843.t1 | TTS | g8843.t1 | 33489155 | 33489155 |
| chr_2 | g8843 | g8843.t1 | isoform | g8843.t1 | 33489260 | 33491346 |
| chr_2 | g8843 | g8843.t1 | exon | g8843.t1.exon1 | 33489260 | 33490560 |
| chr_2 | g8843 | g8843.t1 | cds | g8843.t1.CDS1 | 33489260 | 33490560 |
| chr_2 | g8843 | g8843.t1 | exon | g8843.t1.exon2 | 33490623 | 33490933 |
| chr_2 | g8843 | g8843.t1 | cds | g8843.t1.CDS2 | 33490623 | 33490933 |
| chr_2 | g8843 | g8843.t1 | exon | g8843.t1.exon3 | 33490991 | 33491346 |
| chr_2 | g8843 | g8843.t1 | cds | g8843.t1.CDS3 | 33490991 | 33491346 |
| chr_2 | g8843 | g8843.t1 | TSS | g8843.t1 | NA | NA |
Sequences
>g8843.t1 Gene=g8843 Length=1968
ATGGAAGAAATTAAAAGTGAAAAACTTTCATCATCCAAAAGTTTTACTGTAACTGATCCA
AAAGAAAGTGTAAAAATATTAAAAAGTGTTAATGAAATTTTTCCTCGTGAGCCTTTGACA
GTTCCAGAATTTTTTAATAAAATTGTTTCTGATCATGGCGATCATACTGCTTTAATGTAT
AAAAAAGAAGGCAGTGATGAATGGACACCAATAACTTATAAAGAATATAAAAGTAGAGTT
GAACAAATTGCGAAAGTTTTTATAAAACTGGGTCTTGAAAGACATGGAAGTGTAGCTGTT
TTAGCAAATAATTGTGTCGAATGGTTTTTATCCATGTTAGGAGCAATTTTTGCAGGAGGC
CAAATTTGTGGAATTTATACAACAAATTCATCTGAAGCATCACGTTACATTTTAGAAAGT
TGTCGTGCAAACATCGTTGTAGTTGACAGTGATGAACAGCTTGAAAAAATTATGAAAATT
AAAGATCAACTTCCACATTTGAAAGCAATTGTTAAAATTTTATCAACGAATGATATTGAA
GGTGTTTGGAAATGGAGCGATCTTGAAGAAATGAAAGTTGATGAAAGTGAAGAAGAATAT
CAAAGCAGATTATCACAAATCACACCAAATTCTTGTTGTTGCATTGTTTTTACATCTGGC
ACAACAGGAAATCCAAAAGGAGCAATGATGAGTCATGATAACATTATTTGGAACACTCAA
AGTATCATCACTGCTCTTGGACCTTTCGAAATGTGTCGAGAGATTATTGTGACTTATCTT
CCACTTTCTCACATTGCGGGTTGTTTCATTGATATTTTTCTTTCAATTTCACTCGCTGCG
ACTGTTTATTTTGCTGATAAAAATGCTCTTAAAGGTTCAATCATGAAAACTTTATATGAA
GTTAAACCAACTTTCTTTTTCGGTGTGCCAAGAATTTTTGAGAAATTTTATGAAAAAATG
GATAAGAATTTGAATAAAGGCAAAGGTTTGAAAAGAAGTTTAATATCATGGGCACAATCA
GCTGCTTTAAATTATCACAAAGAAATCATGAGTGGTAAAAATCCATTTCCATTGCAATAC
ATGTTGGCAAAATATTTAGTTTTAAATAACATCAAAGCCGCATATGGTTTGAATCAAATT
GATAAATTAGGAGTTGGAAGTGCTCCAATAAGCACCGAAATTCTTGAATTTTTCATGAGT
TTAGATTTGCCAATGTTTGATGCTTATGGAATGACTGAATCAACTGGTGTAATATTTACT
AATTCAACACGTGAAATGAAACTAGGAAGTGTTGGGAAGTGTGTAGCTGGCATTGAAGCA
AGAATTTTTAATCCAGATGAAGATGGCTATGGTGAGATTCAAACTAGAGGAAGAAATACT
TTCATGGGTTATATGAATGAACCTGAAAAGACAAGAGAAATAATAACAGAAGATTTATGG
TTAAAATCAGGAGATATTGGTTACATTGATAATGAAGGATTTTTGCATATGAAAGGAAGA
ATTAAAGAGTTAATAATAACAGCAGGTGGTGAAAATATTCCATATTTACATATTGAAAAT
CTTGTCAAGAATGAATGCCATGCAATTTCCAATACTTTTCTCATTGGTGATAAAAGAAAA
TTTCTGACAATGCTGATTACATTGAAGACTAAAATGAACAGTGATGGAGCACCATGTGAT
GAACTTGCACCTGAAAGTTTATCATTAATGAAGGAACTTGGATTGGAATACAAATTGTTG
AGTGAAATTCTCAATTCTGGACCTGATCCGAAAATTATTGAAGCTTTACAAGCAGCAATC
GACCGTGCAAATAAAAAAGCAATTTCAAATGCTCAAAAAGTTCAAAAGTTTGCAATTCTT
CCAAATGATTTTAGTTTACCAACTGGTGAGCTTAATGCAACAATGAAATTGAAGAGAAAT
TTTGTACTGAATAAATACAGTGAGATTATAAACAAATTTTATTCATAA
>g8843.t1 Gene=g8843 Length=655
MEEIKSEKLSSSKSFTVTDPKESVKILKSVNEIFPREPLTVPEFFNKIVSDHGDHTALMY
KKEGSDEWTPITYKEYKSRVEQIAKVFIKLGLERHGSVAVLANNCVEWFLSMLGAIFAGG
QICGIYTTNSSEASRYILESCRANIVVVDSDEQLEKIMKIKDQLPHLKAIVKILSTNDIE
GVWKWSDLEEMKVDESEEEYQSRLSQITPNSCCCIVFTSGTTGNPKGAMMSHDNIIWNTQ
SIITALGPFEMCREIIVTYLPLSHIAGCFIDIFLSISLAATVYFADKNALKGSIMKTLYE
VKPTFFFGVPRIFEKFYEKMDKNLNKGKGLKRSLISWAQSAALNYHKEIMSGKNPFPLQY
MLAKYLVLNNIKAAYGLNQIDKLGVGSAPISTEILEFFMSLDLPMFDAYGMTESTGVIFT
NSTREMKLGSVGKCVAGIEARIFNPDEDGYGEIQTRGRNTFMGYMNEPEKTREIITEDLW
LKSGDIGYIDNEGFLHMKGRIKELIITAGGENIPYLHIENLVKNECHAISNTFLIGDKRK
FLTMLITLKTKMNSDGAPCDELAPESLSLMKELGLEYKLLSEILNSGPDPKIIEALQAAI
DRANKKAISNAQKVQKFAILPNDFSLPTGELNATMKLKRNFVLNKYSEIINKFYS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g8843.t1 | Gene3D | G3DSA:3.40.50.12780 | - | 36 | 353 | 3.6E-54 |
| 7 | g8843.t1 | Gene3D | G3DSA:3.40.50.12780 | - | 355 | 500 | 7.2E-35 |
| 2 | g8843.t1 | PANTHER | PTHR43272 | LONG-CHAIN-FATTY-ACID–COA LIGASE | 9 | 654 | 3.1E-225 |
| 3 | g8843.t1 | PANTHER | PTHR43272:SF32 | LONG-CHAIN-FATTY-ACID–COA LIGASE ACSBG2 | 9 | 654 | 3.1E-225 |
| 1 | g8843.t1 | Pfam | PF00501 | AMP-binding enzyme | 48 | 507 | 3.3E-92 |
| 9 | g8843.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 261 | - |
| 10 | g8843.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 262 | 285 | - |
| 8 | g8843.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 286 | 655 | - |
| 5 | g8843.t1 | ProSitePatterns | PS00455 | Putative AMP-binding domain signature. | 215 | 226 | - |
| 4 | g8843.t1 | SUPERFAMILY | SSF56801 | Acetyl-CoA synthetase-like | 31 | 654 | 9.55E-105 |
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.
