General information for g4512.t11
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as ATP-citrate synthase.
Parent gene
- The parent gene g4512 is located on chr_2: 2954643..2956816 (- 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 | g4512 | g4512.t11 | isoform | g4512.t11 | 2951979 | 2952961 |
| chr_2 | g4512 | g4512.t11 | exon | g4512.t11.exon1 | 2951979 | 2952295 |
| chr_2 | g4512 | g4512.t11 | cds | g4512.t11.CDS1 | 2951979 | 2952295 |
| chr_2 | g4512 | g4512.t11 | exon | g4512.t11.exon2 | 2952359 | 2952891 |
| chr_2 | g4512 | g4512.t11 | cds | g4512.t11.CDS2 | 2952359 | 2952596 |
| chr_2 | g4512 | g4512.t11 | exon | g4512.t11.exon3 | 2952957 | 2952961 |
| chr_2 | g4512 | g4512.t11 | TSS | g4512.t11 | NA | NA |
| chr_2 | g4512 | g4512.t11 | TTS | g4512.t11 | NA | NA |
Sequences
>g4512.t11 Gene=g4512 Length=855
AAAGCACGTATTGGCAAATTTATTTATGAGCTTTATCAGTTATATTCTGATCTCTACTTT
ACATATCTTGAAATTAACCCTCTCGTTGTCACTGATGACTCAATCTATATTTTGGATCTT
GCTGCCAAAATTGATGCCACTGCTGATTTTATTTGTCGTCCAAAATGGGGAGATATTGAT
TATCCGCCACCCTTTGGACGTGATGCTTATCCCGAAGAAGCATATATTGCAGATTTGGAT
GCCAAATCTGGTGCATCTTTAAAATTAACGATTTTAAATCGTAATGGTCGTATTTGGACT
ATGGTTGCTGGTGGTGGTGCAAGTGTTATTTATTCAGATACTATTTGTGACTATGGTGGA
GCTTCAGAATTGGCAAATTATGGCGAGTATAGTGGTGCACCTTCAGAACAACAAACTTAC
GAATATGCTAAAACTATTCTCAATCTTATGACATCATCACCTAAACATCCTGATGGAAAA
GTTTTGATTATTGGAGGTGGAATTGCAAATTTTACAAATGTTGCTGCAACATTCAGTGGA
ATCATTACTGCATTAAGAGAATTTATGGCTCGTTTGATTGAACATAAAGTCTCAGTTTTC
GTTCGTCGTGCTGGTCCAAATTATCAAGAAGGTCTTCGTCGAATGCGTGAAATTGGTGCC
ACTCTTGGAATTCCTTTACACGTTTTCGGTCCAGAAACTCATATGACAGCAATTTGTGGA
ATGGCTCTTGGCAAAAAACCAATTCCTAATGTTGCTGATTTACACTTTGCAACAGCAAAT
TTCTTATTACCTGGTGGTCAACAACAGCAAGAACAACGTAAAATGATTTCTAGTCAAACA
TCTCAAACTGATGGT
>g4512.t11 Gene=g4512 Length=185
MVAGGGASVIYSDTICDYGGASELANYGEYSGAPSEQQTYEYAKTILNLMTSSPKHPDGK
VLIIGGGIANFTNVAATFSGIITALREFMARLIEHKVSVFVRRAGPNYQEGLRRMREIGA
TLGIPLHVFGPETHMTAICGMALGKKPIPNVADLHFATANFLLPGGQQQQEQRKMISSQT
SQTDG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g4512.t11 | Gene3D | G3DSA:3.40.50.261 | - | 1 | 131 | 2.2E-61 |
| 6 | g4512.t11 | MobiDBLite | mobidb-lite | consensus disorder prediction | 166 | 185 | - |
| 2 | g4512.t11 | PANTHER | PTHR23118 | ATP-CITRATE SYNTHASE | 1 | 166 | 8.1E-75 |
| 3 | g4512.t11 | PANTHER | PTHR23118:SF32 | ATP-CITRATE SYNTHASE | 1 | 166 | 8.1E-75 |
| 1 | g4512.t11 | Pfam | PF16114 | ATP citrate lyase citrate-binding | 1 | 145 | 6.4E-72 |
| 5 | g4512.t11 | SUPERFAMILY | SSF52210 | Succinyl-CoA synthetase domains | 1 | 121 | 3.39E-18 |
| 4 | g4512.t11 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 61 | 83 | - |
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.
