General information for g4512.t8
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.t8 | isoform | g4512.t8 | 2950363 | 2952512 |
| chr_2 | g4512 | g4512.t8 | exon | g4512.t8.exon1 | 2950363 | 2950818 |
| chr_2 | g4512 | g4512.t8 | cds | g4512.t8.CDS1 | 2950364 | 2950818 |
| chr_2 | g4512 | g4512.t8 | exon | g4512.t8.exon2 | 2950890 | 2950972 |
| chr_2 | g4512 | g4512.t8 | cds | g4512.t8.CDS2 | 2950890 | 2950972 |
| chr_2 | g4512 | g4512.t8 | exon | g4512.t8.exon3 | 2951074 | 2951678 |
| chr_2 | g4512 | g4512.t8 | cds | g4512.t8.CDS3 | 2951074 | 2951534 |
| chr_2 | g4512 | g4512.t8 | exon | g4512.t8.exon4 | 2951981 | 2952295 |
| chr_2 | g4512 | g4512.t8 | exon | g4512.t8.exon5 | 2952359 | 2952512 |
| chr_2 | g4512 | g4512.t8 | TSS | g4512.t8 | NA | NA |
| chr_2 | g4512 | g4512.t8 | TTS | g4512.t8 | NA | NA |
Sequences
>g4512.t8 Gene=g4512 Length=1613
GAGTATAGTGGTGCACCTTCAGAACAACAAACTTACGAATATGCTAAAACTATTCTCAAT
CTTATGACATCATCACCTAAACATCCTGATGGAAAAGTTTTGATTATTGGAGGTGGAATT
GCAAATTTTACAAATGTTGCTGCAACATTCAGTGGAATCATTACTGCATTAAGAGAATTT
ATGGCTCGTTTGATTGAACATAAAGTCTCAGTTTTCGTTCGTCGTGCTGGTCCAAATTAT
CAAGAAGGTCTTCGTCGAATGCGTGAAATTGGTGCCACTCTTGGAATTCCTTTACACGTT
TTCGGTCCAGAAACTCATATGACAGCAATTTGTGGAATGGCTCTTGGCAAAAAACCAATT
CCTAATGTTGCTGATTTACACTTTGCAACAGCAAATTTCTTATTACCTGGTGGTCAACAA
CAGCAAGAACAACGTAAAATGATTTCTAGTCAAACATCTCAAACTGATGGAAGGCACAAA
AAGAATTTCATTAAACTCTTCTATAGGTGCATCAGGACAGACATCTTCTGCAAAAGCCAC
TCGTGCTGGAGTAACAAATCAGGCTGAATACAGAAAGCTTTTCTCAAAAAATACAAAATC
AATTGTATGGGGAATGCAAACTCGTGCCGTTCAGTCAATGTTAGATTTTGATTTTATTTG
TCGTCGTGAAGAGCCATCAGTTGTCGCGATGGTTTATCCTTTTACCGGATATCACCGTCA
AAAGTTTTACTGGGGACATAAAGAAATTTTAATTCCCGTCTATAGCAAAATGGGAGATGC
TTGCAGTAAACATAAGGATGTTGATGTTCTTGTTAATTTTGCATCACTTAGATCTGCTTA
TGAATCATCACTCGAGGTTGTCAATGAATTTCCTCAAATTCGTACTATTGCAATTATTGC
TGAAGGTATACCTGAAAACATGACAAGAAAACTTAATGCAGCCGCTCATTCCAAAAAGGT
CTCTATTATTGGACCTGCCACGGTTGGTGGCGTAAAACCAGGTTGTTTCAAAATTGGAAA
TACTGGAGGAATGCTGGATAATATTTTGCATTCAAAATTATACCGTCCTGGCAGTGTGGC
ATATGTTTCTCGATCAGGTGGAATGTCAAATGAATTGAACAATATTATAAGCAATACAAC
AGACGGTGTATTTGAAGGTGTTGCAATTGGTGGTGATCGTTATCCCGGAACAACTTTTAT
GGATCATATCATGCGTTATCAAAATGATGATGGTGCAAAATTGATTGTTGTTCTTGGTGA
AGTTGGTGGAGTTGAGGAATATGAAATTTGTGCGGCTTTAAAAGATGGAAGAATTACAAA
GCCATTGATTGCATGGTGCATTGGAACATGTGCTGGAATGTTTACATCTGAAGTTCAATT
CGGTCATGCTGGTTCATGCGCTCAATCAGATATGGAAACAGCTTCAGCTAAAAATAAGGC
ATTACGTGATGCAGGAGCACATGTACCTGATTCTTTTGATACTCTTGGAGATTTAATTGC
TCACGTTTATGAGGATATGGTACAAAGTGGACAAATTGTTCCCGCCGAAGAAGTTCCACC
ACCGACCGTTCCTATGGATTATAATTGGGCACGCGAGTTGGGATTGATTCGTA
>g4512.t8 Gene=g4512 Length=333
MQTRAVQSMLDFDFICRREEPSVVAMVYPFTGYHRQKFYWGHKEILIPVYSKMGDACSKH
KDVDVLVNFASLRSAYESSLEVVNEFPQIRTIAIIAEGIPENMTRKLNAAAHSKKVSIIG
PATVGGVKPGCFKIGNTGGMLDNILHSKLYRPGSVAYVSRSGGMSNELNNIISNTTDGVF
EGVAIGGDRYPGTTFMDHIMRYQNDDGAKLIVVLGEVGGVEEYEICAALKDGRITKPLIA
WCIGTCAGMFTSEVQFGHAGSCAQSDMETASAKNKALRDAGAHVPDSFDTLGDLIAHVYE
DMVQSGQIVPAEEVPPPTVPMDYNWARELGLIR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g4512.t8 | Gene3D | G3DSA:3.40.50.720 | - | 1 | 122 | 8.8E-55 |
| 12 | g4512.t8 | Gene3D | G3DSA:3.40.50.261 | - | 123 | 318 | 5.2E-71 |
| 2 | g4512.t8 | PANTHER | PTHR23118:SF0 | ATP-CITRATE SYNTHASE | 1 | 333 | 1.6E-188 |
| 3 | g4512.t8 | PANTHER | PTHR23118 | ATP-CITRATE SYNTHASE | 1 | 333 | 1.6E-188 |
| 6 | g4512.t8 | PRINTS | PR01798 | Succinyl-CoA synthase signature | 184 | 202 | 4.4E-5 |
| 5 | g4512.t8 | PRINTS | PR01798 | Succinyl-CoA synthase signature | 215 | 228 | 4.4E-5 |
| 4 | g4512.t8 | PRINTS | PR01798 | Succinyl-CoA synthase signature | 251 | 268 | 4.4E-5 |
| 1 | g4512.t8 | Pfam | PF00549 | CoA-ligase | 158 | 282 | 8.4E-16 |
| 10 | g4512.t8 | ProSitePatterns | PS01216 | ATP-citrate lyase / succinyl-CoA ligases family signature 1. | 159 | 188 | - |
| 9 | g4512.t8 | ProSitePatterns | PS00399 | ATP-citrate lyase / succinyl-CoA ligases family active site. | 244 | 260 | - |
| 7 | g4512.t8 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 7 | 121 | 5.77E-14 |
| 8 | g4512.t8 | SUPERFAMILY | SSF52210 | Succinyl-CoA synthetase domains | 131 | 299 | 5.65E-37 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0003824 | catalytic activity | MF |
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.
