General information for g8049.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as ADP-ribosylation factor 6.
Parent gene
- The parent gene g8049 is located on chr_2: 28213623..28218219 (- 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 | g8049 | g8049.t9 | TTS | g8049.t9 | 28212392 | 28212392 |
| chr_2 | g8049 | g8049.t9 | isoform | g8049.t9 | 28212967 | 28218219 |
| chr_2 | g8049 | g8049.t9 | exon | g8049.t9.exon1 | 28212967 | 28213765 |
| chr_2 | g8049 | g8049.t9 | cds | g8049.t9.CDS1 | 28213623 | 28213765 |
| chr_2 | g8049 | g8049.t9 | exon | g8049.t9.exon2 | 28213855 | 28214106 |
| chr_2 | g8049 | g8049.t9 | cds | g8049.t9.CDS2 | 28213855 | 28214106 |
| chr_2 | g8049 | g8049.t9 | exon | g8049.t9.exon3 | 28214180 | 28214230 |
| chr_2 | g8049 | g8049.t9 | cds | g8049.t9.CDS3 | 28214180 | 28214230 |
| chr_2 | g8049 | g8049.t9 | exon | g8049.t9.exon4 | 28214305 | 28214547 |
| chr_2 | g8049 | g8049.t9 | cds | g8049.t9.CDS4 | 28214305 | 28214335 |
| chr_2 | g8049 | g8049.t9 | exon | g8049.t9.exon5 | 28218138 | 28218219 |
| chr_2 | g8049 | g8049.t9 | TSS | g8049.t9 | 28218219 | 28218219 |
Sequences
>g8049.t9 Gene=g8049 Length=1427
AGTAAACCACCCCCTATTTTAAAAGTCGGATGTATTATTGAGAGAAATCGAGTTATAATA
TCTTAATTAAATATATTCTAAGTTTAGAACCAATAACACATAATTATATATAATATATTT
GGACTATATCGTCATCATCCGTGGGGTAGGATTGAGAGATTGTGTGTGAGAAGGAAGGAA
AACATCGAATTGCATGCGCCAATAAGCTATTTAATATATTTAGACAGATATAAAACAGCA
AAAATGGGAAAGTTACTATCCAAAATATTTGGCAATAAAGAAATGAGAATACTAATGTTG
GGGCTCGATGCCGCTGGTAAAACAACAATTTTGTATAAATTAAAATTAGGGCAATCAGTT
ACTACTATTCCAACAGTTGGATTCAACGTTGAGACAGTCACATATAAAAATGTTAAGTTT
AATGTGTGGGATGTAGGAGGTCAAGATAAAATTCGTCCTTTATGGCGACATTACTATACA
GGAACTCAAGGACTCATATTTGTGGTAGATTGTGCGGATAGAGATCGTATTGATGAAGCA
CGTCAGGAGCTACATCGAATTATAAATGATAGAGAAATGCGTGATGCAATTATTTTAATA
TTTGCCAACAAACAAGATTTACCTGATGCAATGAAGCCCCACGAGATACAAGAAAAACTT
GGTCTTACACGTATTCGTGATCGAAATTGGTATGTGCAGCCTTCATGTGCGACATCCGGT
GATGGTTTATACGAAGGACTCACATGGTTGACTTCAAATCACAAATTATGAGAGTAAATT
CAATTCTTGCCTTGTCTCTTTCTCATATTTTCTCCCCTTCCACATAATAATGTTTAACAA
TCGTTACGTCTACGCAAAATTTGTTCTTCTCCATCATTTAACTTAACTGATTATAATTGA
ACAAATAAGCGAGACATGAAAAGTTGATTTTCGATATTAATTTAAACTGAGAAACCTAAC
TGTCGTAAAATAAATTATGCATGTTTAATATTGTTCCGTCACTTTTTCTAAATGACACAT
CAAGAGAAAGAAAGTAAACTGTCATGTGTTTTTAATAATAATTTTTGCAAAGCATCTGTA
ACTTTAAAAAAGATAATGATATGATGAAAATAATAATAATAATTATTATTATATTGTGTA
AAGTTCATTTATATAATATCAATCGACTAGAAAATATTTAAAAAAAATCTTTGTTGAAAA
TTTCTTTTTGCACAGAACATATGTGTGTGCAAAAAATGATATACAATATAAGTAAAGAAT
GAAAAAAAAAATAAATTTCATAAATTAACAAGTGTAAATATTTATTACAAATTATTACAA
AACACATAAGTAAACAAAAGAGATAGAAGAACATTTAAAATTAAATGAAAATAAAACATA
ATTGCTAAATAGAATAACATAATGATGTGAAAATAATAGAAAACACA
>g8049.t9 Gene=g8049 Length=158
MLGLDAAGKTTILYKLKLGQSVTTIPTVGFNVETVTYKNVKFNVWDVGGQDKIRPLWRHY
YTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQE
KLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNHKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g8049.t9 | CDD | cd04149 | Arf6 | 1 | 155 | 0.0000 |
| 8 | g8049.t9 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 155 | 0.0000 |
| 2 | g8049.t9 | PANTHER | PTHR11711 | ADP RIBOSYLATION FACTOR-RELATED | 1 | 157 | 0.0000 |
| 3 | g8049.t9 | PANTHER | PTHR11711:SF394 | ADP-RIBOSYLATION FACTOR 6 | 1 | 157 | 0.0000 |
| 5 | g8049.t9 | PRINTS | PR00328 | GTP-binding SAR1 protein signature | 26 | 50 | 0.0000 |
| 6 | g8049.t9 | PRINTS | PR00328 | GTP-binding SAR1 protein signature | 53 | 78 | 0.0000 |
| 4 | g8049.t9 | PRINTS | PR00328 | GTP-binding SAR1 protein signature | 98 | 119 | 0.0000 |
| 1 | g8049.t9 | Pfam | PF00025 | ADP-ribosylation factor family | 1 | 155 | 0.0000 |
| 14 | g8049.t9 | ProSiteProfiles | PS51417 | small GTPase Arf family profile. | 1 | 158 | 23.4250 |
| 10 | g8049.t9 | SMART | SM00177 | arf_sub_2 | 1 | 157 | 0.0000 |
| 11 | g8049.t9 | SMART | SM00175 | rab_sub_5 | 1 | 130 | 0.0074 |
| 12 | g8049.t9 | SMART | SM00178 | sar_sub_1 | 1 | 156 | 0.0000 |
| 7 | g8049.t9 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 1 | 154 | 0.0000 |
| 13 | g8049.t9 | TIGRFAM | TIGR00231 | small_GTP: small GTP-binding protein domain | 1 | 122 | 0.0000 |
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:0005525 | GTP binding | MF |
| GO:0003924 | GTPase 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.
