General information for g1456.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative ADP-ribosylation factor GTPase-activating protein 1.
Parent gene
- The parent gene g1456 is located on chr_3: 11045027..11045850 (- 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_3 | g1456 | g1456.t4 | isoform | g1456.t4 | 11044081 | 11045850 |
| chr_3 | g1456 | g1456.t4 | exon | g1456.t4.exon1 | 11044081 | 11045562 |
| chr_3 | g1456 | g1456.t4 | cds | g1456.t4.CDS1 | 11044496 | 11045562 |
| chr_3 | g1456 | g1456.t4 | exon | g1456.t4.exon2 | 11045714 | 11045850 |
| chr_3 | g1456 | g1456.t4 | cds | g1456.t4.CDS2 | 11045714 | 11045804 |
| chr_3 | g1456 | g1456.t4 | TSS | g1456.t4 | 11045916 | 11045916 |
| chr_3 | g1456 | g1456.t4 | TTS | g1456.t4 | NA | NA |
Sequences
>g1456.t4 Gene=g1456 Length=1619
ATGAGTTCACCTCGTTCGCGAAGACTTTTTCAGGAAATAAAAACAAATGACGAGAGCAAT
AAGTTCTGCTTTGATTGTGGAGCACATGCTCCTCAATGGGGTAATTATATTTTTTGAAAA
ACAATTTTTTTATAATGTACACATTTCATTCATTCGTTCAATTACAATGGACAAATGGAA
AGACCTTGAACTAGAGAAAATGAAAGTAGGAGGAAATCGGAAGGCAAAACAATTCCTTGA
AGCTGAAGATAGTTGGAATGAATCAACACGTTTCAATGATCGCTACAATTCATTAGCAGC
TGCTTTATATCGTGACAAAATTTCAGCTTTGGCAGAAGGACGTGAATGGGATTATGATGA
AGCAAAGAAGAGATTGGCAAAGAGACCATCAGCTCACATTCCTCACTCGAAAAGCGCTGG
CGCACTTTCATCGAATAATTATTCTTCAGGCAATAACTATGAAGCAAGTTCTGGTGGCGG
TTATCAAAATGCAGAATTTAACATGAAAGACATCAGTGATCAGAAAGAAAAATTCTTTGA
TAGAATTCAAGCTGAGAATGCAATGAGGCGAGATGATTTGCCGCCAAGTCAAGGTGGCCG
TTATCAAGGCTTTGGGAATCAAGTTCAAAATAATTCTGTTAGAAAGAGTCAAAGTGAGTT
CTTTGATACAACTTGGTCTTCATTCTCGAGTGGCTGGGGATTGCTTTCAAATAGCGCTAC
AAAACTTGCTCAAACAGCTAAAGATTATGGGAATATTGCATCTCAAAAAATGAAAGAATC
GAATCTGCTTGATGTTGCTGGAAAAGAAGTTTTTAATATCGCAAATAAAGTAACAGATCT
GGGAAGAAAAGGTCTTCAAACCGCTACAAGCGCAATTAGTGGAGCTAACTATAACGACAT
TGACAATCCACAACAACAGCAAAAAAGCAATTACGAACAGAATCAATTTAATAATGATTG
GACCAATGTCGATTCAAATGGTTTTACAGATGACGACCAATTCGAATCATATCAAAGTTA
CGAAAGCCCTAAAAGTGTTGCAAGCGAGAAAACTAGTATAAAAGCCAGTCGTCCAAGACC
GCAAGCATCAGATAGCTTAGTAAATGATTTTAAAAATATGGATGTAAAGAGTGGTATAAA
AGTAGATAGCTCAAAGAAAACAAATAAACAGGAAGATGATTTATGGAATATGTTGAACAA
CTAGACAAATTGCTAAATATAATAAATCTATATTTAAGATTAAGTCACCATCATGATATA
ATGAATGTGCATTTGTGTGAAATGTAGCTTAACACTAGAAAATATTCTATCTGTGATAAA
GTTACATAAAAAAGGTGAAGGAGAGAAAATATTCCAATAAAATAATATCGAGTGTTTGAT
GAGAAAAAAGGAAAAGAATTATCTATTGTCCACTCTTGCTGCAACACAATTGCCATCGAA
AATAAAAATCCCAATAACTACTTTTTAATTTGCATAAATGTAATTATTCTTCTACTTTTA
TTTATCCAGCTTTCAATCAATCAATGCATATAGGGTATATACTCATAAAATGTTAATTTT
TGTTTGAGTTAAAAAGTAAAAAATAAAAAAGAATCCGCAAACTACTTTAACGTACATCT
>g1456.t4 Gene=g1456 Length=385
MTRAISSALIVEHMLLNGVIIFFEKQFFYNVHISFIRSITMDKWKDLELEKMKVGGNRKA
KQFLEAEDSWNESTRFNDRYNSLAAALYRDKISALAEGREWDYDEAKKRLAKRPSAHIPH
SKSAGALSSNNYSSGNNYEASSGGGYQNAEFNMKDISDQKEKFFDRIQAENAMRRDDLPP
SQGGRYQGFGNQVQNNSVRKSQSEFFDTTWSSFSSGWGLLSNSATKLAQTAKDYGNIASQ
KMKESNLLDVAGKEVFNIANKVTDLGRKGLQTATSAISGANYNDIDNPQQQQKSNYEQNQ
FNNDWTNVDSNGFTDDDQFESYQSYESPKSVASEKTSIKASRPRPQASDSLVNDFKNMDV
KSGIKVDSSKKTNKQEDDLWNMLNN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g1456.t4 | Gene3D | G3DSA:3.30.40.160 | - | 28 | 105 | 1.0E-19 |
| 5 | g1456.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 324 | 355 | - |
| 6 | g1456.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 324 | 385 | - |
| 7 | g1456.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 360 | 377 | - |
| 2 | g1456.t4 | PANTHER | PTHR46395 | ADP-RIBOSYLATION FACTOR GTPASE-ACTIVATING PROTEIN 1 | 31 | 373 | 7.3E-64 |
| 1 | g1456.t4 | Pfam | PF01412 | Putative GTPase activating protein for Arf | 30 | 91 | 4.0E-9 |
| 4 | g1456.t4 | SMART | SM00105 | arf_gap_3 | 1 | 101 | 0.001 |
| 3 | g1456.t4 | SUPERFAMILY | SSF57863 | ArfGap/RecO-like zinc finger | 30 | 82 | 5.49E-9 |
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:0005096 | GTPase activator 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.
