General information for g15486.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g15486 is located on chr_4: 5612651..5614542 (- 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_4 | g15486 | g15486.t2 | isoform | g15486.t2 | 5612088 | 5613098 |
| chr_4 | g15486 | g15486.t2 | exon | g15486.t2.exon1 | 5612088 | 5613098 |
| chr_4 | g15486 | g15486.t2 | cds | g15486.t2.CDS1 | 5612651 | 5613094 |
| chr_4 | g15486 | g15486.t2 | TSS | g15486.t2 | NA | NA |
| chr_4 | g15486 | g15486.t2 | TTS | g15486.t2 | NA | NA |
Sequences
>g15486.t2 Gene=g15486 Length=1011
TGACATGAGAGAAATTGGAATAGATTTATTTGAATGGGCAAAACAAATAAAAAGTGATCA
AAAAAATACAATTTTGGTTCCATATACTTCAGTTTATTACAAAATAATTATTAATAACAC
ATTTAATTTGATGATTTGTAAGGAACATTTTATGACAATTCCAACTGTTGTTTATACAAG
AAAAAATTTCTACCTACTTGGAGCAATAAACGATCAAATAGAAGAATTTAAATCAGCTGG
ATTGATTGAATATTGGCATTCACTTGCATTTGATAAAAAGTATATGAAGGTGGATAATGA
TAAACATCCCAAAGTTCTTACTATTGGGCACTTATCTGGAGTTTTTGAATTATTGATATT
TGGATATATCATCAGTTTAATTACTTTCATTTTTGAATTTTTATATGCAAAATGGGAAAA
ATATAAAAAGCGCCTGAATCATACATAATTTTATTCAAAACAACTGAAGCAACACTGACT
TATAAAAAGTTGAAATAAATTTTCTACAAATTGCAGTTGGACAAATAAAAATAGTTTTTT
TCTGAAATATATAATTTTTTGAATAAATCAAATGAAAAAATTTTAGAGTACACAAGAATT
ATAAGTATTGATGTATTTATAAAAAAATGAATCATAAATTTCTAGTGACTATTAAAAATT
TTTCCCCTATCAGTGACGTAAAAATTTATTTGTTTTTCAATCGTAAATATAAATGCCGGT
TATCTTTTCAATCCAATCAAGATAAGAAGCCACACGTGTGAACACTAGTGGATGTCCTAA
AGTGCAACCTGTGATAACATTTTTTTTATTAAAATATTAAGACATGAATATTTAAATTTT
TCTAACCTGATTCGGCACCAAAACTAACAATTCCTACTAAAACATTTCTTCCAGGCGCAA
TTTCAGTTACCAATGGTCCACCTAAGAAAATTTATTGAATTTAGCTCAATTAATCATCAA
ATCTAAGAAAAGTCAATAAAAATTTATCAAAATATTTTTTTATTACACACC
>g15486.t2 Gene=g15486 Length=147
MREIGIDLFEWAKQIKSDQKNTILVPYTSVYYKIIINNTFNLMICKEHFMTIPTVVYTRK
NFYLLGAINDQIEEFKSAGLIEYWHSLAFDKKYMKVDNDKHPKVLTIGHLSGVFELLIFG
YIISLITFIFEFLYAKWEKYKKRLNHT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g15486.t2 | Gene3D | G3DSA:3.40.190.10 | - | 16 | 54 | 2.7E-10 |
| 5 | g15486.t2 | Gene3D | G3DSA:3.40.190.10 | - | 55 | 103 | 2.7E-10 |
| 4 | g15486.t2 | Gene3D | G3DSA:1.10.287.70 | - | 104 | 131 | 2.7E-10 |
| 1 | g15486.t2 | PANTHER | PTHR42643:SF16 | IONOTROPIC RECEPTOR 11A-RELATED | 10 | 139 | 4.0E-17 |
| 2 | g15486.t2 | PANTHER | PTHR42643 | IONOTROPIC RECEPTOR 20A-RELATED | 10 | 139 | 4.0E-17 |
| 8 | g15486.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 112 | - |
| 9 | g15486.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 113 | 134 | - |
| 7 | g15486.t2 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 135 | 147 | - |
| 3 | g15486.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 113 | 135 | - |
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