General information for g13156.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Pleckstrin homology domain-containing family M member 1.
Parent gene
- The parent gene g13156 is located on chr_1: 28282777..28283713 (+ 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 | g13156 | g13156.t3 | TSS | g13156.t3 | 28280293 | 28280293 |
| chr_1 | g13156 | g13156.t3 | isoform | g13156.t3 | 28280411 | 28281622 |
| chr_1 | g13156 | g13156.t3 | exon | g13156.t3.exon1 | 28280411 | 28280457 |
| chr_1 | g13156 | g13156.t3 | cds | g13156.t3.CDS1 | 28280411 | 28280457 |
| chr_1 | g13156 | g13156.t3 | exon | g13156.t3.exon2 | 28280530 | 28280615 |
| chr_1 | g13156 | g13156.t3 | cds | g13156.t3.CDS2 | 28280530 | 28280615 |
| chr_1 | g13156 | g13156.t3 | exon | g13156.t3.exon3 | 28280772 | 28281622 |
| chr_1 | g13156 | g13156.t3 | cds | g13156.t3.CDS3 | 28280772 | 28281622 |
| chr_1 | g13156 | g13156.t3 | TTS | g13156.t3 | 28281817 | 28281817 |
Sequences
>g13156.t3 Gene=g13156 Length=984
ATGAATAAATTTCTCAAAGATAAAGAAAATAAATATTTTGAAGAGAGGCAAAAATATATT
CGTGAAACTCTCAATTATCACTTGAGCGAAAATGTGAAAGAGAACGAATATGAGTTTAAG
ACTAAGAATAATGAAACACTCGGATTCTGTGAGTGCAGTAGTGCACTTTGCTATACAATA
GAAGCAATTCTTCTGCATGGTCTAAAGGAATCATTTTTACAAATACTCTCGAATTTTGGA
AGTGATGAGAGTGCTAAACCAAATCCCTCTTTTTGGAGCTTCGTTTTGCTTTTTCTGCAT
AAGCAAGATATAAAAGACATTCAATCGCTTACTCAACTCACATGTGAAGTCGGTTACTCA
CGAGCTTTTGTACGCAAAGCTTTAAATGAATCATTGCTTAGCTCATATCTAAAAAATATA
CGAAAATCAACATCAACGCTTAAAAAATATTATAATCCATATGCATTTTTACTTGATCAT
GAATTAAGTGAAACAGCAATAAGTTTGCTTATCGGTATTGAGAGCTATGTGGTTTTTAAT
TTACCATGCAATTCGTCATTACTCAATGTTTGGAATGACACTCCACTTCAACTTTCTGGC
TTATATACAGCACCATTAAAAAGTGTACCATTTCTCTTTGGTGAAGATGCTGCAGAACTT
TTGGTATCAACAAGCACGCACAATATAGACATTCCACCACAGAAAAATAATGTTCTATCT
GATATTTACACACATGAGATATCTAATTCAATATTTAGTAACACACCTAGTTCAATTGAT
GATTTTGATGAGAATGAAAAATTTGAAAATTTTATTAGAAAAGTTGATAGTCCTGGTGGT
GAAGATACAAATGAAGATATATCAGAACGAATGTGTGAATCAAATGATGAGCCATTAACT
GAAAGTCAAGATATGCATCTTCCACTAGACAATGATGAAGAGAAAATGCAAGAAAGTCAA
GACGATGTCACACCAGAAAATAAA
>g13156.t3 Gene=g13156 Length=328
MNKFLKDKENKYFEERQKYIRETLNYHLSENVKENEYEFKTKNNETLGFCECSSALCYTI
EAILLHGLKESFLQILSNFGSDESAKPNPSFWSFVLLFLHKQDIKDIQSLTQLTCEVGYS
RAFVRKALNESLLSSYLKNIRKSTSTLKKYYNPYAFLLDHELSETAISLLIGIESYVVFN
LPCNSSLLNVWNDTPLQLSGLYTAPLKSVPFLFGEDAAELLVSTSTHNIDIPPQKNNVLS
DIYTHEISNSIFSNTPSSIDDFDENEKFENFIRKVDSPGGEDTNEDISERMCESNDEPLT
ESQDMHLPLDNDEEKMQESQDDVTPENK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g13156.t3 | Gene3D | G3DSA:1.20.58.900 | - | 13 | 189 | 2.8E-31 |
| 6 | g13156.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 274 | 300 | - |
| 7 | g13156.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 274 | 328 | - |
| 8 | g13156.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 306 | 328 | - |
| 2 | g13156.t3 | PANTHER | PTHR12326:SF12 | PROTEIN CBG20681 | 14 | 322 | 9.2E-56 |
| 3 | g13156.t3 | PANTHER | PTHR12326 | PLECKSTRIN HOMOLOGY DOMAIN CONTAINING PROTEIN | 14 | 322 | 9.2E-56 |
| 1 | g13156.t3 | Pfam | PF02759 | RUN domain | 56 | 182 | 2.1E-19 |
| 10 | g13156.t3 | ProSiteProfiles | PS50826 | RUN domain profile. | 47 | 186 | 32.459 |
| 5 | g13156.t3 | SMART | SM00593 | 893paper3 | 120 | 184 | 1.9E-12 |
| 4 | g13156.t3 | SUPERFAMILY | SSF140741 | RUN domain-like | 21 | 189 | 3.79E-30 |
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.
