General information for g7303.t38
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as ADP-ribosylation factor 1.
Parent gene
- The parent gene g7303 is located on chr_2: 22848898..22849864 (- 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 | g7303 | g7303.t38 | TTS | g7303.t38 | 22847929 | 22847929 |
| chr_2 | g7303 | g7303.t38 | isoform | g7303.t38 | 22848080 | 22849622 |
| chr_2 | g7303 | g7303.t38 | exon | g7303.t38.exon1 | 22848080 | 22848182 |
| chr_2 | g7303 | g7303.t38 | cds | g7303.t38.CDS1 | 22848080 | 22848182 |
| chr_2 | g7303 | g7303.t38 | exon | g7303.t38.exon2 | 22848249 | 22848310 |
| chr_2 | g7303 | g7303.t38 | cds | g7303.t38.CDS2 | 22848249 | 22848310 |
| chr_2 | g7303 | g7303.t38 | exon | g7303.t38.exon3 | 22848386 | 22848511 |
| chr_2 | g7303 | g7303.t38 | cds | g7303.t38.CDS3 | 22848386 | 22848511 |
| chr_2 | g7303 | g7303.t38 | exon | g7303.t38.exon4 | 22848617 | 22848675 |
| chr_2 | g7303 | g7303.t38 | cds | g7303.t38.CDS4 | 22848617 | 22848675 |
| chr_2 | g7303 | g7303.t38 | exon | g7303.t38.exon5 | 22848744 | 22848824 |
| chr_2 | g7303 | g7303.t38 | cds | g7303.t38.CDS5 | 22848744 | 22848824 |
| chr_2 | g7303 | g7303.t38 | exon | g7303.t38.exon6 | 22848955 | 22849009 |
| chr_2 | g7303 | g7303.t38 | cds | g7303.t38.CDS6 | 22848955 | 22849009 |
| chr_2 | g7303 | g7303.t38 | exon | g7303.t38.exon7 | 22849085 | 22849278 |
| chr_2 | g7303 | g7303.t38 | cds | g7303.t38.CDS7 | 22849085 | 22849147 |
| chr_2 | g7303 | g7303.t38 | exon | g7303.t38.exon8 | 22849499 | 22849622 |
| chr_2 | g7303 | g7303.t38 | TSS | g7303.t38 | 22849846 | 22849846 |
Sequences
>g7303.t38 Gene=g7303 Length=804
TGTGATACAAAAATCGAGAACGAAGGAAAAAACATGTGAAAAGAGAAAAAGTCAAATTTC
TAGCCATATTTTATTAATTTTCTTAGTTGGATTACGTTATATTAGTTGTATAGACATATT
TTATCTATATCGTCGCTAAACACAAGAAAAACTATAATTTAGAAAGGAAACTGCGAGTGC
AAGAGGAGAAAAAAAGAAGATTGTGTGTGACCTGTGAAATTATATACATTCGAAAAGAAG
ACTTAATAAATAAAGATGGGAAACGTATTTGCTAATCTGTTCAAAGGTTTATTTGGTAAA
AAGGAGATGAGAATATTGATGGTTGGTCTCGATGCTGCTGGTAAAACGACAATTTTATAC
AAGCTTAAATTAGGTGAAATTGTAACTACAATCCCAACCATTGGCTTCAACGTTGAAACT
GTAGAATACAAAAATATTTCATTTACTGTTTGGGATGTTGGTGGTCAAGACAAAATCCGC
CCACTCTGGAGACATTATTTCCAAAATACCCAAGGGCTTATCTTTGTCGTTGATAGTAAT
GACCGTGAGCGTGTTGGTGAAGCTCGTGAAGAATTAATGAGAATGTTGGCTGAAGATGAA
TTGAGGGATGCTGTGCTTTTAATTTTTGCCAACAAGCAGGATTTGCCCAATGCTATGAAT
GCAGCCGAAATCACAGATAAATTAGGTCTTCACTCATTACGAAACCGAAGCTGGTATATT
CAAGCAACGTGTGCAACCAGTGGAGATGGCCTCTATGAAGGTTTGGATTGGCTTTCGAAT
CAACTGAAGAACGCTAACCGCTAA
>g7303.t38 Gene=g7303 Length=182
MGNVFANLFKGLFGKKEMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKN
ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVGEAREELMRMLAEDELRDAV
LLIFANKQDLPNAMNAAEITDKLGLHSLRNRSWYIQATCATSGDGLYEGLDWLSNQLKNA
NR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g7303.t38 | CDD | cd04150 | Arf1_5_like | 18 | 176 | 0.0000 |
| 9 | g7303.t38 | Gene3D | G3DSA:3.40.50.300 | - | 18 | 177 | 0.0000 |
| 2 | g7303.t38 | PANTHER | PTHR11711 | ADP RIBOSYLATION FACTOR-RELATED | 1 | 180 | 0.0000 |
| 3 | g7303.t38 | PANTHER | PTHR11711:SF357 | ADP-RIBOSYLATION FACTOR 1 | 1 | 180 | 0.0000 |
| 4 | g7303.t38 | PRINTS | PR00328 | GTP-binding SAR1 protein signature | 19 | 42 | 0.0000 |
| 7 | g7303.t38 | PRINTS | PR00328 | GTP-binding SAR1 protein signature | 47 | 71 | 0.0000 |
| 5 | g7303.t38 | PRINTS | PR00328 | GTP-binding SAR1 protein signature | 74 | 99 | 0.0000 |
| 6 | g7303.t38 | PRINTS | PR00328 | GTP-binding SAR1 protein signature | 119 | 140 | 0.0000 |
| 1 | g7303.t38 | Pfam | PF00025 | ADP-ribosylation factor family | 7 | 176 | 0.0000 |
| 15 | g7303.t38 | ProSiteProfiles | PS51417 | small GTPase Arf family profile. | 11 | 177 | 25.3130 |
| 11 | g7303.t38 | SMART | SM00177 | arf_sub_2 | 1 | 181 | 0.0000 |
| 13 | g7303.t38 | SMART | SM00178 | sar_sub_1 | 1 | 177 | 0.0000 |
| 12 | g7303.t38 | SMART | SM00175 | rab_sub_5 | 18 | 180 | 0.0042 |
| 8 | g7303.t38 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 14 | 180 | 0.0000 |
| 14 | g7303.t38 | TIGRFAM | TIGR00231 | small_GTP: small GTP-binding protein domain | 16 | 158 | 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 |
KEGG
Orthology
- This transcript has been annotated with K07937 (ADP-ribosylation factor 1/2)
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. There were no conditions that were differentially expressed