General information for g13457.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Arf-GAP with coiled-coil, ANK repeat and PH domain-containing protein 2.
Parent gene
- The parent gene g13457 is located on chr_1: 30240441..30249146 (- 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_1 | g13457 | g13457.t3 | isoform | g13457.t3 | 30240441 | 30248735 |
| chr_1 | g13457 | g13457.t3 | exon | g13457.t3.exon1 | 30240441 | 30241297 |
| chr_1 | g13457 | g13457.t3 | cds | g13457.t3.CDS1 | 30240442 | 30241209 |
| chr_1 | g13457 | g13457.t3 | exon | g13457.t3.exon2 | 30248733 | 30248735 |
| chr_1 | g13457 | g13457.t3 | TSS | g13457.t3 | 30249146 | 30249146 |
| chr_1 | g13457 | g13457.t3 | TTS | g13457.t3 | NA | NA |
Sequences
>g13457.t3 Gene=g13457 Length=860
GAGTGCATTTGCTACATCATTATGGGAATTACAAAAACATTTTCCCGAGGACAAAGATGC
TTTAACAAAAATAATTCATTGCTTACAGGAAATGAATAAATTTCACAATATTTTACTCGA
ACAGTGTTCTAAAACAGTTTTAAAGAATATTTCTAATTTTCTGAAAAAAGACGTTCGAGA
AGTGAAAGACTATAAGCAGATATTTACAAAAATATCAGAAAATTATGATGGTGCATTAAA
TAAAAATTCCCAAGTGAACAAAAATCGACCACAAGAGATTATTGAGGCTGAAAATTACGT
TTGTTCTACCAAATCACAATTTCAACATTCAGCTCTCGACTATGTTAATTATATTACATT
ACTACAACGCAAAAAGCGACCAGAAATTTTATCAACTCTCTTGAGCTATGTGTCTGCATG
TTCGACATATTTTCATCAAGGGAGTGATTTATGTCAAGATTATGACACTTATCTATTCAA
AGAATTGGATGAGGAAGTAAATAATATGCGAGCTGATTACGCTGCACTCGAAAAAGAAAT
GCAAAAACGGCACAATTATGTATTGGGATATTCTGAGAATAATAAAGATATGAATGGCAG
TGAAGAATCGAAAGCAAGTGCAGGAAAACAAATGGAAGGTTATTTATTTAAACGTACATC
TAATGCTTTTAAAACATGGAATCGCAGATGGTTCTATATGAAAGACAATAAATTATATTA
TCGTAAAAGGTCGGGTGAAGACATTCCCGTAACAATGGAAGATGATTTAAAGTTATGTGC
AGTGCGACCATTGATGGATAGTGATAGACGATTCTGTTTTGAAGTAATTTCTCCCACAAA
AAGTCACATTTTGCAAGCTG
>g13457.t3 Gene=g13457 Length=256
MNKFHNILLEQCSKTVLKNISNFLKKDVREVKDYKQIFTKISENYDGALNKNSQVNKNRP
QEIIEAENYVCSTKSQFQHSALDYVNYITLLQRKKRPEILSTLLSYVSACSTYFHQGSDL
CQDYDTYLFKELDEEVNNMRADYAALEKEMQKRHNYVLGYSENNKDMNGSEESKASAGKQ
MEGYLFKRTSNAFKTWNRRWFYMKDNKLYYRKRSGEDIPVTMEDDLKLCAVRPLMDSDRR
FCFEVISPTKSHILQA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g13457.t3 | CDD | cd13250 | PH_ACAP | 181 | 256 | 1.24668E-46 |
| 9 | g13457.t3 | Coils | Coil | Coil | 129 | 149 | - |
| 8 | g13457.t3 | Gene3D | G3DSA:1.20.1270.60 | Arfaptin | 1 | 163 | 5.1E-41 |
| 7 | g13457.t3 | Gene3D | G3DSA:2.30.29.30 | - | 165 | 256 | 5.2E-23 |
| 3 | g13457.t3 | PANTHER | PTHR23180:SF399 | CENTAURIN BETA 1A | 1 | 256 | 3.6E-101 |
| 4 | g13457.t3 | PANTHER | PTHR23180 | CENTAURIN/ARF | 1 | 256 | 3.6E-101 |
| 2 | g13457.t3 | Pfam | PF16746 | BAR domain of APPL family | 1 | 150 | 1.5E-45 |
| 1 | g13457.t3 | Pfam | PF00169 | PH domain | 180 | 256 | 3.9E-10 |
| 10 | g13457.t3 | ProSiteProfiles | PS50003 | PH domain profile. | 178 | 256 | 11.735 |
| 6 | g13457.t3 | SUPERFAMILY | SSF103657 | BAR/IMD domain-like | 2 | 201 | 1.69E-44 |
| 5 | g13457.t3 | SUPERFAMILY | SSF50729 | PH domain-like | 180 | 256 | 2.12E-19 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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. There were no conditions that were differentially expressed