General information for g6811.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Acetyl-coenzyme A synthetase.
Parent gene
- The parent gene g6811 is located on chr_2: 18840315..18844818 (+ 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 | g6811 | g6811.t1 | TSS | g6811.t1 | 18839995 | 18839995 |
| chr_2 | g6811 | g6811.t1 | isoform | g6811.t1 | 18840315 | 18844818 |
| chr_2 | g6811 | g6811.t1 | exon | g6811.t1.exon1 | 18840315 | 18840622 |
| chr_2 | g6811 | g6811.t1 | cds | g6811.t1.CDS1 | 18840315 | 18840622 |
| chr_2 | g6811 | g6811.t1 | exon | g6811.t1.exon2 | 18842209 | 18842404 |
| chr_2 | g6811 | g6811.t1 | cds | g6811.t1.CDS2 | 18842209 | 18842404 |
| chr_2 | g6811 | g6811.t1 | exon | g6811.t1.exon3 | 18842848 | 18843204 |
| chr_2 | g6811 | g6811.t1 | cds | g6811.t1.CDS3 | 18842848 | 18843204 |
| chr_2 | g6811 | g6811.t1 | exon | g6811.t1.exon4 | 18843266 | 18843451 |
| chr_2 | g6811 | g6811.t1 | cds | g6811.t1.CDS4 | 18843266 | 18843451 |
| chr_2 | g6811 | g6811.t1 | exon | g6811.t1.exon5 | 18843511 | 18843665 |
| chr_2 | g6811 | g6811.t1 | cds | g6811.t1.CDS5 | 18843511 | 18843665 |
| chr_2 | g6811 | g6811.t1 | exon | g6811.t1.exon6 | 18843726 | 18843841 |
| chr_2 | g6811 | g6811.t1 | cds | g6811.t1.CDS6 | 18843726 | 18843841 |
| chr_2 | g6811 | g6811.t1 | exon | g6811.t1.exon7 | 18843904 | 18844059 |
| chr_2 | g6811 | g6811.t1 | cds | g6811.t1.CDS7 | 18843904 | 18844059 |
| chr_2 | g6811 | g6811.t1 | exon | g6811.t1.exon8 | 18844114 | 18844365 |
| chr_2 | g6811 | g6811.t1 | cds | g6811.t1.CDS8 | 18844114 | 18844365 |
| chr_2 | g6811 | g6811.t1 | exon | g6811.t1.exon9 | 18844426 | 18844521 |
| chr_2 | g6811 | g6811.t1 | cds | g6811.t1.CDS9 | 18844426 | 18844521 |
| chr_2 | g6811 | g6811.t1 | exon | g6811.t1.exon10 | 18844576 | 18844614 |
| chr_2 | g6811 | g6811.t1 | cds | g6811.t1.CDS10 | 18844576 | 18844614 |
| chr_2 | g6811 | g6811.t1 | exon | g6811.t1.exon11 | 18844676 | 18844818 |
| chr_2 | g6811 | g6811.t1 | cds | g6811.t1.CDS11 | 18844676 | 18844818 |
| chr_2 | g6811 | g6811.t1 | TTS | g6811.t1 | NA | NA |
Sequences
>g6811.t1 Gene=g6811 Length=2004
ATGCCAGAACAAAACATTTTTCAACCAGATCCAAAACTGTCACGTTCATCTTATGTTTCA
TCATTGCAGCAGTACAATGAACTTTATAAAGAATCCATTGAACATCCAGAAAAATTCTGG
GGAAATATTGCAAAGCAATTTCATTGGGAAACTCCAGCTGATCCAAAAAATTTTTTGTCA
TATAATTTTGACATATCAAAAGGTCCAATTTCCATTAAATGGATGGAAGGAGCATCAACA
AATATTTGCTACAATCTCTTAGATCGGAACATTAAAAATGGACATGGTGATAAAATTGCA
TTTTATTGGGAAGGAAATCATCCTGAAGATTTTACACGATTTACATACCGTAAGCTGTTA
GAGGAAGTATGTCGCTTTGCTAATGTTCTCAAAATGCATGGAGTCAACAAGGGAGATCGC
GTGGCTATTTATATGCCAATGATTATGGAAACACCAATTGCTATGCTTGCATGTGCACGA
ATCGGTGCGGTTCATTCAATTGTCTTTGCCGGATTTTCATCAGACTCACTTGCTGAGAGA
ATGAAGGACTGCAAGGCCAAAGTTTTAATCACAAGTGACGGAGCATGGCGAGGTGAAAAA
TTATTGCATTTGAAAAAAATTTGTGATCAAGCACTTGACAAGGCAGAGGAATTAGGTCAC
CATGTTGAAACTTGTATTGTTGTAAAACACATAAATCGAGTAACTGCACCAGTGCCAGAT
CTTGTAGAAGATTTTTCAGTCGATATGCGAGATGATCGTGATTTTTGGTGGAACGATGAA
ATGGAAGATGTTGAACCTAGTTGCTATCCTGAATGGACAAGTGTTGAAGATCCACTTTTC
ATGCTTTATACAAGTGGCTCTACTGGCAAACCAAAAGGAGTACTTCATACAACCGGAGGT
TATTTGCTTTATGCTAGCACAACATTTAAGCTTGTATTTGATTACAAACCTGGTGATGTC
TATTGGTGCACGGCTGACATTGGTTGGATTACAGGTCATAGTTATGTTGTTTATGGTCCA
TTAGCTAATGCTGCTACATCTGTTATGTTTGAAGGAACACCATTCTATCCAGATGTCGAT
AGATACTGGCAAATTATTGAAAAGTATAAGGTCACACAATTCTACACAGCACCAACTGCG
CTCCGTTCTCTTATGAAGTTCGGTGATCAACCTCCATCAAAGCACAATTTAGAAACATTG
AAAGTACTTGGTAGCGTTGGAGAGCCTATTAATCCTGAAGCATGGTTATGGTACTATAAA
GTGATTGGTAAAGAAAAGTGCTCAATTGTTGACACATTCTGGCAAACAGAAACTGGAGGT
CATGTAATAACTCCTTTGCCTGGATGCACACCAATGAAACCCGGATCTGCTTCTTTTCCA
TTCTTTGGTGTTAAACCAAGTCTTTTAGATGAAGGTGGTAAAGAAATTCAAGGTGAAGGA
GAAGGTTATCTCGTTTTCAGTCAACCATGGCCGGGTATGATGCGAACTGTTTTTAATGAT
CATCCTCGCTTTGAGTCAACCTATTTCTCTAAATTCCCTGGATATTATTGCACTGGTGAT
GGTGCACGACGTGATAGTGATGGATATTTATGGATAACAGGACGTGTTGATGACATGTTG
AACGTCTCTGGTCATTTAATGGCAACTGCTGAAGTTGAAGCTGTCTTGACTGAACATCCA
AGAGTATCTGAAGCTGCTGTAGTTTCACGTCCCCATCCTGTTAAAGGAGAATGTCTTTAT
TGTTTTATTACTCCCAATCAAAGTGAAACTTTTGACAAGAAAATGGTTGATGAATTGAAA
GTTTTAGTTCGTGAAAGAATAGGTCCATTTGCTCAGCCTGATGTTATACAACATGCTCCA
GGTTTACCTAAAACACGCTCAGGTAAAATTATGCGCAGAATTTTAAGAAAAGTTGCAGTA
AATGATCGTGAAGTTGGCGACATCTCAACACTTGCTGAGGAGCAAATTGTAGAAATTTTA
TTCCAAAATCGACCAGAAAAATAA
>g6811.t1 Gene=g6811 Length=667
MPEQNIFQPDPKLSRSSYVSSLQQYNELYKESIEHPEKFWGNIAKQFHWETPADPKNFLS
YNFDISKGPISIKWMEGASTNICYNLLDRNIKNGHGDKIAFYWEGNHPEDFTRFTYRKLL
EEVCRFANVLKMHGVNKGDRVAIYMPMIMETPIAMLACARIGAVHSIVFAGFSSDSLAER
MKDCKAKVLITSDGAWRGEKLLHLKKICDQALDKAEELGHHVETCIVVKHINRVTAPVPD
LVEDFSVDMRDDRDFWWNDEMEDVEPSCYPEWTSVEDPLFMLYTSGSTGKPKGVLHTTGG
YLLYASTTFKLVFDYKPGDVYWCTADIGWITGHSYVVYGPLANAATSVMFEGTPFYPDVD
RYWQIIEKYKVTQFYTAPTALRSLMKFGDQPPSKHNLETLKVLGSVGEPINPEAWLWYYK
VIGKEKCSIVDTFWQTETGGHVITPLPGCTPMKPGSASFPFFGVKPSLLDEGGKEIQGEG
EGYLVFSQPWPGMMRTVFNDHPRFESTYFSKFPGYYCTGDGARRDSDGYLWITGRVDDML
NVSGHLMATAEVEAVLTEHPRVSEAAVVSRPHPVKGECLYCFITPNQSETFDKKMVDELK
VLVRERIGPFAQPDVIQHAPGLPKTRSGKIMRRILRKVAVNDREVGDISTLAEEQIVEIL
FQNRPEK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g6811.t1 | CDD | cd05966 | ACS | 23 | 653 | 0.0 |
| 8 | g6811.t1 | Gene3D | G3DSA:3.40.50.12780 | - | 61 | 535 | 2.8E-102 |
| 9 | g6811.t1 | Gene3D | G3DSA:3.30.300.30 | - | 538 | 666 | 1.8E-25 |
| 4 | g6811.t1 | PANTHER | PTHR24095 | ACETYL-COENZYME A SYNTHETASE | 4 | 665 | 0.0 |
| 5 | g6811.t1 | PANTHER | PTHR24095:SF126 | ACETYL-COENZYME A SYNTHETASE, CYTOPLASMIC | 4 | 665 | 0.0 |
| 2 | g6811.t1 | Pfam | PF16177 | Acetyl-coenzyme A synthetase N-terminus | 25 | 85 | 4.1E-21 |
| 3 | g6811.t1 | Pfam | PF00501 | AMP-binding enzyme | 93 | 542 | 1.4E-94 |
| 1 | g6811.t1 | Pfam | PF13193 | AMP-binding enzyme C-terminal domain | 551 | 629 | 1.5E-21 |
| 7 | g6811.t1 | ProSitePatterns | PS00455 | Putative AMP-binding domain signature. | 281 | 292 | - |
| 6 | g6811.t1 | SUPERFAMILY | SSF56801 | Acetyl-CoA synthetase-like | 24 | 660 | 1.7E-172 |
| 10 | g6811.t1 | TIGRFAM | TIGR02188 | Ac_CoA_lig_AcsA: acetate–CoA ligase | 20 | 661 | 7.4E-281 |
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:0019427 | acetyl-CoA biosynthetic process from acetate | BP |
| GO:0003987 | acetate-CoA ligase activity | MF |
| GO:0016208 | AMP binding | MF |
KEGG
Orthology
- This transcript has been annotated with K01895 (acetyl-CoA synthetase)
Pathway
- This transcript belongs to the following pathways
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.
