General information for g13294.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g13294 is located on chr_1: 28943248..28945443 (+ 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 | g13294 | g13294.t1 | isoform | g13294.t1 | 28943248 | 28945443 |
| chr_1 | g13294 | g13294.t1 | exon | g13294.t1.exon1 | 28943248 | 28944608 |
| chr_1 | g13294 | g13294.t1 | cds | g13294.t1.CDS1 | 28943248 | 28944608 |
| chr_1 | g13294 | g13294.t1 | exon | g13294.t1.exon2 | 28944933 | 28945443 |
| chr_1 | g13294 | g13294.t1 | cds | g13294.t1.CDS2 | 28944933 | 28945443 |
| chr_1 | g13294 | g13294.t1 | TSS | g13294.t1 | NA | NA |
| chr_1 | g13294 | g13294.t1 | TTS | g13294.t1 | NA | NA |
Sequences
>g13294.t1 Gene=g13294 Length=1872
ATGAAATTTATTTTAATTATTTTGTTGGCACTATGTTGCCACTCTCAAATAATCGAAAAT
CCAATAATTGCGATCATCAATAAGTTTTATATCCAACAATTGTCACTAAATTTTATTGTA
CATTTCAATGACTCATCGCAAGTGCGAATATTGGATCGAGTTTTAAACTATTTAAATAAT
AATGCTAGTACAGATTTTGTTCCATTTATGATAGAATCACTTGATAATAAAAAATCATTA
TCATCGTCAGTCAAGCGAAGAAATGTGATAATTTTCATAGACAATAATCATGATTTATTA
TCGATAATTTTTAGTTCATTAACGAGTGATGGCTTTCAAATGAATGGATTTTACACATTT
GTGATTTTGCGCATCAAGGACGATGATATGAGCAATCTGTTTGAAAAGTTGTGGCAAAAA
TTCATTTATAATGTAAACATTCTGACACTCGACAATGGACGAGTGATGTTAAAGACTTTT
ATGCCATTTAGCGCTGAAATTTGTTACAATATACGTCCAATTATAATTAATGAATATGAC
AACAAACTTGAGAAGTGGAAAAATGATAACTTCTTTCCGCCAAAGTTTACAAACTTTTAC
AACTGTTCGCTACGAGCAACGACATTTGAGTATGCGCCAGCTGTAATCAAACGAAATATT
AATAACGGCTCATATACACTGGAGGGTAGTGATATTGAGCTTATCAATGGCTTAAAGGAT
ATCTTAAATTTTCACCTTAATCTTACATACAACGATAAACCTGGTGCTTCTGGCATGACT
TACAAAAATGGAACAGTCACAGGAGTAAAATTATCACTTCTTAGCAACGATACTGACTTT
CTTTTTGGTTTATATTATGTAACATATCCAAATTGCCTATATATGGGTTGTAGCCGTCCA
TATTATGCTGTTTTTATGACAGTAATTGTGCCACAAATCGATCTAACATCACTGGAGAAA
TTCTTCATTCCATTTCGATTGGATTTGTGGGTTTCATTGATTATTGTACTGTTCTTGGCA
GTGTTTGTTATTGCAATTTTGAAGCATAAACTGAAAAGGTTTAGAAACTTTATTATTGGC
AGCAACATAAATGACCCATTTAACGAGCTTCTGACTGCATTTATAGGCGGCTCATCACAC
AAACTTCCTCGTCGTAATTTTGCACGCTATTTATTAATGATATTTATACTCTTCTGTCTC
GTCATGCGGTCAGTATATATTGGCGGATTATTTAAGTATCTTCAGTCAAATGAGAAAATC
TCACCATTTAAAACTATCAAAGATTTAGTAGCGAGAGATTACAAGCTTTATTCACATTTC
TACTTTGAGGATTATCTTGTGAATATGGGATTAAGTGATAGTATTATAATAATCAAACCA
AGTGAAGATGCTTATTATAAAGCTAAAACATTTGATCCAAATTTTCGTGGAGGTTTTTCG
ATAACATCAGATGAACTGTTATATCTAAACAAGTTAAATGTCGCAAATTTCACATATCGC
GTGTGTAAAGAACATCTTTATACAGTAAATAACGGTCTACTTTTCCAAAATGATTCATTT
CTTATAGAAGCGTTCGATCGCATCATAATACAGCTTCAGTCAAATGGACTCATCAATTAT
TGGATCACAAAGTATATTGACACAAGTTACTTCGATATCAAGAAAGCAGATCGTATACCA
GAGCAATTGACTTTAAGTCATCTACTTGGATCTTTCCAAATGTGGCTATGTGGCATCATT
CTTGCAACTGGAAGCTTCATCATTGAAGTCATTTATTATAAAATTAAAAAAGTTGAAAGA
GGAAAAAGTTTACTGAACGAGAGAAAGTATATTCTTTCATCAATCAGTAAGAAGGAAAAT
GGAAAGGGATGA
>g13294.t1 Gene=g13294 Length=623
MKFILIILLALCCHSQIIENPIIAIINKFYIQQLSLNFIVHFNDSSQVRILDRVLNYLNN
NASTDFVPFMIESLDNKKSLSSSVKRRNVIIFIDNNHDLLSIIFSSLTSDGFQMNGFYTF
VILRIKDDDMSNLFEKLWQKFIYNVNILTLDNGRVMLKTFMPFSAEICYNIRPIIINEYD
NKLEKWKNDNFFPPKFTNFYNCSLRATTFEYAPAVIKRNINNGSYTLEGSDIELINGLKD
ILNFHLNLTYNDKPGASGMTYKNGTVTGVKLSLLSNDTDFLFGLYYVTYPNCLYMGCSRP
YYAVFMTVIVPQIDLTSLEKFFIPFRLDLWVSLIIVLFLAVFVIAILKHKLKRFRNFIIG
SNINDPFNELLTAFIGGSSHKLPRRNFARYLLMIFILFCLVMRSVYIGGLFKYLQSNEKI
SPFKTIKDLVARDYKLYSHFYFEDYLVNMGLSDSIIIIKPSEDAYYKAKTFDPNFRGGFS
ITSDELLYLNKLNVANFTYRVCKEHLYTVNNGLLFQNDSFLIEAFDRIIIQLQSNGLINY
WITKYIDTSYFDIKKADRIPEQLTLSHLLGSFQMWLCGIILATGSFIIEVIYYKIKKVER
GKSLLNERKYILSSISKKENGKG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g13294.t1 | Gene3D | G3DSA:3.40.190.10 | - | 227 | 561 | 1.1E-31 |
| 11 | g13294.t1 | Gene3D | G3DSA:3.40.190.10 | - | 305 | 511 | 1.1E-31 |
| 9 | g13294.t1 | Gene3D | G3DSA:1.10.287.70 | - | 315 | 589 | 1.1E-31 |
| 2 | g13294.t1 | PANTHER | PTHR42643:SF16 | IONOTROPIC RECEPTOR 11A-RELATED | 51 | 596 | 7.0E-62 |
| 3 | g13294.t1 | PANTHER | PTHR42643 | IONOTROPIC RECEPTOR 20A-RELATED | 51 | 596 | 7.0E-62 |
| 1 | g13294.t1 | Pfam | PF00060 | Ligand-gated ion channel | 327 | 578 | 2.8E-8 |
| 16 | g13294.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 15 | - |
| 17 | g13294.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 18 | g13294.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 11 | - |
| 22 | g13294.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 12 | 15 | - |
| 15 | g13294.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 16 | 328 | - |
| 21 | g13294.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 329 | 347 | - |
| 12 | g13294.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 348 | 389 | - |
| 20 | g13294.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 390 | 414 | - |
| 14 | g13294.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 415 | 571 | - |
| 19 | g13294.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 572 | 593 | - |
| 13 | g13294.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 594 | 623 | - |
| 7 | g13294.t1 | SUPERFAMILY | SSF53850 | Periplasmic binding protein-like II | 202 | 548 | 4.56E-18 |
| 8 | g13294.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 15 | - |
| 6 | g13294.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 330 | 347 | - |
| 5 | g13294.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 390 | 407 | - |
| 4 | g13294.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 571 | 593 | - |
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:0016020 | membrane | CC |
| GO:0015276 | ligand-gated ion channel 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. There were no conditions that were differentially expressed