General information for g10776.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g10776 is located on chr_1: 11903950..11904726 (- 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 | g10776 | g10776.t1 | isoform | g10776.t1 | 11902871 | 11904726 |
| chr_1 | g10776 | g10776.t1 | exon | g10776.t1.exon1 | 11902871 | 11903913 |
| chr_1 | g10776 | g10776.t1 | cds | g10776.t1.CDS1 | 11902871 | 11903913 |
| chr_1 | g10776 | g10776.t1 | exon | g10776.t1.exon2 | 11903967 | 11904726 |
| chr_1 | g10776 | g10776.t1 | cds | g10776.t1.CDS2 | 11903967 | 11904726 |
| chr_1 | g10776 | g10776.t1 | TSS | g10776.t1 | NA | NA |
| chr_1 | g10776 | g10776.t1 | TTS | g10776.t1 | NA | NA |
Sequences
>g10776.t1 Gene=g10776 Length=1803
ATGTTGAGGATAGTGGCCATTATGATTTTTCTTACACAAAGCCTAACAATATCAAAACTT
AATAAAAAAAATTCTATTCCTGATAGTATTGAAAATTTGGGTTTAATTTTGAAGCGTGTT
ATGGACTCATTCTATTGTGAAGAATCAACTATCGATTTAACAACAATTAACAAAAAAGAC
ACAGAAATAATTGAAACTCTTGCATATATTCTTCCGATAATTGAAAAATGTTCATCTGTT
CGAATTTCATCGGATATAAAAAAGAAGAGTAGAAAAAAGTTTAACAACATAGCTGTCATT
AAGGATAAAATGGAATTCGATAAATTTCTAAAATTAGTTACAAATGAAAACTTTGATTAT
CGAGGATTTTATACAATAATTTTTACAGACAAAAATATTAAGCTTGAGTCAATTTTTGCG
CAAGCCTGGAAAATTTCTATACCAAATTTAAATGCAATTATAAAAAGTTCATATAGTTGG
AAAGTTTTCACATATTATCCTTTTTCAAATGAAATTTGTGGAAATTTTATGCCTTATGAA
GTTGATATAAATTTTTTATTTCCTCAAAAAATTACCAATCTACAACAGTGTAAACTTAAA
TTTCCGAAATTAAATTATTATCCAGGATTAATTATTAAAGAAATTTCAAATGGAATTTAT
TCACTTTCTGGAATTGATGGAGATATAGTTAAAGAGTTAATGGTAAATTTTAATTTTACT
ATAAAATTTTTGAAACTACCACGAGAGGAGGAAAGATGGGGTGTTGCAAATGATAATGGT
AATCACACTGGTGCTATAAAGATGGTGGTTGACAAAGAAGCAGATTTTATGTTAGGATTA
ATGGCATTAACGTTGTTGCGAGTAAAATTCATGGATAGTACGACATCATTTATTAGTTTC
CCATTCGTGTTGATTACCCCGCGTGGACAAGAATTTAATTCATTTCAAAAGCTTTTCAGG
CCATTTACTTTAATCGTTTGGATTTTTCTTATTGTTTCTTTCTTGTTTGGCTTTTTATTC
ATCTTTATTGTTCGTAAATTTGGCAGTGATAAATTCAAAAAGAAGCTTTTTATCGAAAAT
CATCGAACATCTTATCTCAACATGATAAATGTCTTTTTAGGTGGTACATTATACATTTTA
CCTTCAAAAAGTGTCGGTCGAATGTTATTGGCGACCTTCATACTTTATTGCATTGTCATG
CGAACAATTTATCAAGGATTGTTGTTCAAATACATGCAATCTGACGATCGTCAGCAACCA
GTGATGACTGTTGATGAATTGATTGAAAAAGATTTTATTGTTTATATGCAACCTGTCTAT
GTTGAGCATTCAAAGCATATGAAATTTTTCTCCAAAAGAAAAGTCATTAAAGATTCTGAA
GTGGAATGTTACCAACAACGCACACTTGATGCTTCTTTCAAAGGTGCTGTGACGAGTTCA
TTAGATGAAGTTCTTTATGTCAATATGCAAAACTATAAAAACTTTACTTATCGTGTGCTG
CCTGAGTACCTTTATTCATTTAATTATGTCATATATTTTCAAAAAAATTCACCATATTTG
AATGCTTTTAATGAGAAAATCAGTTTATTTAAATCAGCAGGATTAATAGACTATTGGGTT
TCAAAATATTTAAATGAAGCTTATTTAAACATACCAGAAGAAGTCAGTGAGCCTAGGAAA
CTAAATTTAACTCAGTTGCAAGGTGGTTTTCAGTTATGGTTAGCAGGATGTTGTGTTAGC
TTCATTATTTTTGTGGTTGAAGTGGTCTGTGGTAAGACTTCAAAAAAGAAAAGGAGAAAA
TGA
>g10776.t1 Gene=g10776 Length=600
MLRIVAIMIFLTQSLTISKLNKKNSIPDSIENLGLILKRVMDSFYCEESTIDLTTINKKD
TEIIETLAYILPIIEKCSSVRISSDIKKKSRKKFNNIAVIKDKMEFDKFLKLVTNENFDY
RGFYTIIFTDKNIKLESIFAQAWKISIPNLNAIIKSSYSWKVFTYYPFSNEICGNFMPYE
VDINFLFPQKITNLQQCKLKFPKLNYYPGLIIKEISNGIYSLSGIDGDIVKELMVNFNFT
IKFLKLPREEERWGVANDNGNHTGAIKMVVDKEADFMLGLMALTLLRVKFMDSTTSFISF
PFVLITPRGQEFNSFQKLFRPFTLIVWIFLIVSFLFGFLFIFIVRKFGSDKFKKKLFIEN
HRTSYLNMINVFLGGTLYILPSKSVGRMLLATFILYCIVMRTIYQGLLFKYMQSDDRQQP
VMTVDELIEKDFIVYMQPVYVEHSKHMKFFSKRKVIKDSEVECYQQRTLDASFKGAVTSS
LDEVLYVNMQNYKNFTYRVLPEYLYSFNYVIYFQKNSPYLNAFNEKISLFKSAGLIDYWV
SKYLNEAYLNIPEEVSEPRKLNLTQLQGGFQLWLAGCCVSFIIFVVEVVCGKTSKKKRRK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g10776.t1 | Gene3D | G3DSA:3.40.190.10 | - | 223 | 559 | 1.2E-42 |
| 12 | g10776.t1 | Gene3D | G3DSA:3.40.190.10 | - | 301 | 509 | 1.2E-42 |
| 11 | g10776.t1 | Gene3D | G3DSA:1.10.287.70 | - | 311 | 587 | 1.2E-42 |
| 2 | g10776.t1 | PANTHER | PTHR42643:SF16 | IONOTROPIC RECEPTOR 11A-RELATED | 95 | 597 | 8.8E-68 |
| 3 | g10776.t1 | PANTHER | PTHR42643 | IONOTROPIC RECEPTOR 20A-RELATED | 95 | 597 | 8.8E-68 |
| 1 | g10776.t1 | Pfam | PF00060 | Ligand-gated ion channel | 326 | 577 | 1.0E-7 |
| 20 | g10776.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 16 | - |
| 21 | g10776.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 22 | g10776.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 11 | - |
| 28 | g10776.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 12 | 16 | - |
| 19 | g10776.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 17 | 323 | - |
| 25 | g10776.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 324 | 344 | - |
| 14 | g10776.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 345 | 364 | - |
| 23 | g10776.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 365 | 382 | - |
| 18 | g10776.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 383 | 387 | - |
| 26 | g10776.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 388 | 409 | - |
| 15 | g10776.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 410 | 494 | - |
| 24 | g10776.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 495 | 513 | - |
| 17 | g10776.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 514 | 569 | - |
| 27 | g10776.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 570 | 590 | - |
| 16 | g10776.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 591 | 600 | - |
| 9 | g10776.t1 | SUPERFAMILY | SSF53850 | Periplasmic binding protein-like II | 221 | 546 | 1.74E-23 |
| 10 | g10776.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 16 | - |
| 6 | g10776.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 322 | 344 | - |
| 4 | g10776.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 365 | 382 | - |
| 5 | g10776.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 387 | 409 | - |
| 8 | g10776.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 494 | 513 | - |
| 7 | g10776.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 569 | 591 | - |
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