General information for g7969.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Long-chain-fatty-acid–CoA ligase 3.
Parent gene
- The parent gene g7969 is located on chr_2: 27331028..27331735 (- 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 | g7969 | g7969.t2 | TTS | g7969.t2 | 27328362 | 27328362 |
| chr_2 | g7969 | g7969.t2 | isoform | g7969.t2 | 27328555 | 27330501 |
| chr_2 | g7969 | g7969.t2 | exon | g7969.t2.exon1 | 27328555 | 27328985 |
| chr_2 | g7969 | g7969.t2 | cds | g7969.t2.CDS1 | 27328555 | 27328985 |
| chr_2 | g7969 | g7969.t2 | exon | g7969.t2.exon2 | 27329043 | 27329351 |
| chr_2 | g7969 | g7969.t2 | cds | g7969.t2.CDS2 | 27329043 | 27329351 |
| chr_2 | g7969 | g7969.t2 | exon | g7969.t2.exon3 | 27329420 | 27329485 |
| chr_2 | g7969 | g7969.t2 | cds | g7969.t2.CDS3 | 27329420 | 27329485 |
| chr_2 | g7969 | g7969.t2 | exon | g7969.t2.exon4 | 27329551 | 27330087 |
| chr_2 | g7969 | g7969.t2 | cds | g7969.t2.CDS4 | 27329551 | 27330087 |
| chr_2 | g7969 | g7969.t2 | exon | g7969.t2.exon5 | 27330164 | 27330367 |
| chr_2 | g7969 | g7969.t2 | cds | g7969.t2.CDS5 | 27330164 | 27330320 |
| chr_2 | g7969 | g7969.t2 | exon | g7969.t2.exon6 | 27330439 | 27330501 |
| chr_2 | g7969 | g7969.t2 | TSS | g7969.t2 | 27331165 | 27331165 |
Sequences
>g7969.t2 Gene=g7969 Length=1610
TTAAACATAGTTGCACCATTGTAACAATTTATGCCACACTTGGTGAAGAAGGAATCATTC
ATGGTGTTAATGAGACAGAAGTATCAGTGATAATCACATCACATGAATTGATGCCAAAAC
TCCGAAGCATTCTCGATAAAATTCCAAAGGTTACAACTATCATCTTCTTTGAAGATCAAT
TACAGAAAACCGATACAAAGGGATTCGAGCGAATCAAAACAATTTCATATTCCAAAGTCA
TTGAGGCGGGCATTAAAAATAAAGTTGAACCGGTTGCTCCGTCAACAAATGATACCGCCA
TAATTATGTATACCTCTGGAAGTACTGGAACTCCAAAAGGTGTGCTTATTTCACATGGCA
ATTGTATTGCAACTTTAAAATGCTTCTGTGATGTTGTCGAGATTCATCCCGATGATATCC
TTCTTGGCTTTTTGCCACTGGCTCATGTCTTCGAATTGCTTGCCGAGAGTGTATGTTTGC
TTACTGGCGTTCCAATTGGCTACTCTTCGCCTAATACCCTCATTGATAGTAGCACAAAAA
TCATGAAGGGCAGTAAGGGCGACGCATCGGTCCTTAGACCCACTTGCATCACGGCCGTTC
CACTAATTCTAGATAGAATTTGTAAGGGTATCACAGATAAAATTAACAAGGGATCTCCAC
TACAAAAGGCTATTTTTAAGTATTGCTACGACTATAAGGTTTTATGGTGTAGACGAGGAT
TTAACACTCCACTGTTGGACTTCATTATTTTTAAGAAAATCACAAAGCTTATGGGCGGTC
GCTTAAGATTGATGATTTCAGGAGGCGCTCCACTTAGTGCAGAAACTCATGAACAAATTC
GTTTATGTCTCTGTGTCGATGTCTGTCAAGGCTATGGGTTGACAGAAACAACAACAGCTT
CATGTGTAATGGATAAACATGATATGACTTATGGACGTGTTGGTGCACCATCATCATTGG
TTGATTTGCGCTTAATTAATTGGGAAGAAGGAAATTATCGTGTGACAAATAAGCCCTATC
CTCAGGGAGAAATTGTTATTGGCTCAAAGAGTGTTGCAATGGGTTATTATAAAATGCCAG
AATTATCAAAAGAAAGCTTCTTTGAAGAAGATGGCAAAAGATGGTTTAGAACTGGTGACA
TTGGTGAAATTTATCCTGATGGTGTTTTAAAAATCATTGATCGTAAAAAAGATTTAGTGA
AGCTTCAAGCCGGTGAATATGTGTCGCTCGGACGTGTCGAAGCTGAAATGAAGACATGTC
CATTAGTTGAAAATATTTGTGTTTATGGTGATCCTTCAAAACATTATTGTGTAGCTTTGG
TTGTACCAGCTGAAAAAATGCTAATGGAATTAGCTGAGAATTTAAATATTCATAATAAAA
ATTTTGAAGAGCTCTGTGCATCGCCAATAATTGAAAAAGCAGTGGCAAGGGAATTAATTG
AGCATGCTAAAAAATGCAAATTAGAAAAGTTTGAAATTCCTGCAGCCATAACATTATGCA
AAGACACATGGACGACTGAAACTGGAATGGTCACAGCAGCTTTTAAGATTAAACGAAAGG
TCATTCAGGAACGTTATAAAGAGGAAATCAAGAGGATGTATGCTTCATAA
>g7969.t2 Gene=g7969 Length=499
MPKLRSILDKIPKVTTIIFFEDQLQKTDTKGFERIKTISYSKVIEAGIKNKVEPVAPSTN
DTAIIMYTSGSTGTPKGVLISHGNCIATLKCFCDVVEIHPDDILLGFLPLAHVFELLAES
VCLLTGVPIGYSSPNTLIDSSTKIMKGSKGDASVLRPTCITAVPLILDRICKGITDKINK
GSPLQKAIFKYCYDYKVLWCRRGFNTPLLDFIIFKKITKLMGGRLRLMISGGAPLSAETH
EQIRLCLCVDVCQGYGLTETTTASCVMDKHDMTYGRVGAPSSLVDLRLINWEEGNYRVTN
KPYPQGEIVIGSKSVAMGYYKMPELSKESFFEEDGKRWFRTGDIGEIYPDGVLKIIDRKK
DLVKLQAGEYVSLGRVEAEMKTCPLVENICVYGDPSKHYCVALVVPAEKMLMELAENLNI
HNKNFEELCASPIIEKAVARELIEHAKKCKLEKFEIPAAITLCKDTWTTETGMVTAAFKI
KRKVIQERYKEEIKRMYAS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g7969.t2 | Gene3D | G3DSA:3.40.50.12780 | - | 3 | 192 | 2.6E-25 |
| 8 | g7969.t2 | Gene3D | G3DSA:3.40.50.12780 | - | 206 | 361 | 1.1E-32 |
| 9 | g7969.t2 | Gene3D | G3DSA:3.30.300.30 | - | 362 | 497 | 8.4E-8 |
| 3 | g7969.t2 | PANTHER | PTHR43272:SF5 | ACYL-COA SYNTHETASE LONG-CHAIN, ISOFORM J | 3 | 497 | 1.4E-176 |
| 4 | g7969.t2 | PANTHER | PTHR43272 | LONG-CHAIN-FATTY-ACID–COA LIGASE | 3 | 497 | 1.4E-176 |
| 2 | g7969.t2 | Pfam | PF00501 | AMP-binding enzyme | 3 | 366 | 1.3E-72 |
| 1 | g7969.t2 | Pfam | PF13193 | AMP-binding enzyme C-terminal domain | 376 | 469 | 8.5E-7 |
| 6 | g7969.t2 | ProSitePatterns | PS00455 | Putative AMP-binding domain signature. | 65 | 76 | - |
| 5 | g7969.t2 | SUPERFAMILY | SSF56801 | Acetyl-CoA synthetase-like | 2 | 497 | 2.49E-89 |
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.
