General information for g10769.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g10769 is located on chr_1: 11876369..11878222 (- 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 | g10769 | g10769.t1 | isoform | g10769.t1 | 11876369 | 11878222 |
| chr_1 | g10769 | g10769.t1 | exon | g10769.t1.exon1 | 11876369 | 11878222 |
| chr_1 | g10769 | g10769.t1 | cds | g10769.t1.CDS1 | 11876369 | 11878222 |
| chr_1 | g10769 | g10769.t1 | TSS | g10769.t1 | NA | NA |
| chr_1 | g10769 | g10769.t1 | TTS | g10769.t1 | NA | NA |
Sequences
>g10769.t1 Gene=g10769 Length=1854
ATGAAGACTTTTGCCACTCTCATTATTATTTTATCAACTTTGCATATTGCAAATAGTTTC
AAACACATTGGTAGTCATCAAAAAGCTATATACACCAATGACTTGGTCGAAGCTATTCGA
ATAATTGCGAGAAAAGTTCTTTACAGACGCTATCAGATGATTCACTTGATAACAGCTGTT
CATAATGAAACTGATGGTGAATATAAAGACTTAAAGACGAAACTTCTTGAAGTAATTCAC
GAGCACTACATGTGCAGAGTAGATGACAATCAGAAAGTTAACACAATTCAATACCGATTA
AGGCAAAACAGTCTTTTCCTTATTGACGACATAAAAAGTTTTCGAGAAATTGTACACTCC
ATCACAATTGAGAGATATCGATTTAATGGAAATTTCCTATTTGTGCTTATTAACGGATAC
TTTGATGAAGTTGAAGAGATTTACGATACAATGTGGAAAAAGAATATCTTTAATGTATAT
TCAATTTATATTGAAGATAATGGTGTCGCACTAAACACATTTTTACCATTTCGAAATAAT
GCGCCATGTGGTGATACAACACCAAGAGTTATTACAAGATTTAAAAATGGAAAATTCGAG
AACGAGAAAATTTTATTTCCTCAAAAACTTCAAAATTTATATAAATGTCCTGTAAGGCTT
GTTACTTTCGAAGATCGTGAAATATTAGCGAGAAAATACTTTGCAAATGGCAGTTATGAG
CTTCATGGCTATCGAATGGATTTTATGAATATTTTATCGCAAGAACTCAACTATACAAAC
AGTATTAAAATTATGGAAGGTGACCAACCATGGGGAGTAATATACAGCAACGGAACTGCA
ACAGGAGCTTTTCTTGAAGTTCTTGAGAACAAGTCAGACATTGCATTTTGTGAATATTAC
TTAAAAACCAGTAGAAATCAATTTTTCGACAGTAGCACAGTATTTTATAGTACACCGCTT
ATATTCGTCATACCAATGGGTCAAAAATTGACAAATCTTGAAAAACTTTTGCAACCTTTC
AATTGGTTTGTTTGGATAACTTTATCATCGACATTATTAATTGCTGTCATTATCATATTA
ATTATAAATCTTAAATTTAAGTCACATAAAGCATTTGTTTATGGCAGTAATGTTAAACAT
CCAATAATCAATATGATACTAGGAATTCTTGGAAATCAACAGACAGTATTGCCAAAAAGG
AATTTTGCTCGATTTATTCTTATGATGTTTCTTATACTTTGTCTTGTTATGAGAAGTGTT
TATCAAGGATCACTTTATCAATTTCTACAATCTGATGGTAGGAGAAAAGAAGTGCAATCA
ATTCAAGAGATGATTGATAATGATTTTACTTTCTACATGTTTGAGTCTTCACTCGATCTT
ATTCAAACTCAAACGGAAATTTTAAGCCGTACAAAAACCTTTAAAGGTGAAAATTTTATT
ATGAAACGTCCACTTGATGGCTCAGAAAAGATTGCTAGTCTTGAAGCATTGAGTGATGTT
CATGTTGCAAATACAGATCCTGAAAGAGATTTCAAATTGAAAATATGCAAAGAGCCATTA
ATGACAATGAATCTTGTGATTTACTTTCGAAAAAGCTTTTATTTAATTGATGAAATTAAC
AAGAAAATTACAGTTCTTATCTCGTCAGGAATAATTGATTATTGGCTAAGACGATCATTG
GACGATTTTCGAGAAGTAAAAAATAATCATCCTCGAAAGCTGAATATTGATGATCTTACT
GGTCCATTTAATCTTTTAATTATTGGTCATTTAACATCATTAATAATTTTCTTAATTGAA
ATCTTCATTTATAAAATGACATTAAAAATTCAATTGATTAGGCCTATATACTAA
>g10769.t1 Gene=g10769 Length=617
MKTFATLIIILSTLHIANSFKHIGSHQKAIYTNDLVEAIRIIARKVLYRRYQMIHLITAV
HNETDGEYKDLKTKLLEVIHEHYMCRVDDNQKVNTIQYRLRQNSLFLIDDIKSFREIVHS
ITIERYRFNGNFLFVLINGYFDEVEEIYDTMWKKNIFNVYSIYIEDNGVALNTFLPFRNN
APCGDTTPRVITRFKNGKFENEKILFPQKLQNLYKCPVRLVTFEDREILARKYFANGSYE
LHGYRMDFMNILSQELNYTNSIKIMEGDQPWGVIYSNGTATGAFLEVLENKSDIAFCEYY
LKTSRNQFFDSSTVFYSTPLIFVIPMGQKLTNLEKLLQPFNWFVWITLSSTLLIAVIIIL
IINLKFKSHKAFVYGSNVKHPIINMILGILGNQQTVLPKRNFARFILMMFLILCLVMRSV
YQGSLYQFLQSDGRRKEVQSIQEMIDNDFTFYMFESSLDLIQTQTEILSRTKTFKGENFI
MKRPLDGSEKIASLEALSDVHVANTDPERDFKLKICKEPLMTMNLVIYFRKSFYLIDEIN
KKITVLISSGIIDYWLRRSLDDFREVKNNHPRKLNIDDLTGPFNLLIIGHLTSLIIFLIE
IFIYKMTLKIQLIRPIY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g10769.t1 | Gene3D | G3DSA:3.40.190.10 | - | 241 | 572 | 3.1E-38 |
| 10 | g10769.t1 | Gene3D | G3DSA:3.40.190.10 | - | 319 | 525 | 3.1E-38 |
| 9 | g10769.t1 | Gene3D | G3DSA:1.10.287.70 | - | 329 | 600 | 3.1E-38 |
| 2 | g10769.t1 | PANTHER | PTHR42643:SF16 | IONOTROPIC RECEPTOR 11A-RELATED | 56 | 607 | 8.7E-62 |
| 3 | g10769.t1 | PANTHER | PTHR42643 | IONOTROPIC RECEPTOR 20A-RELATED | 56 | 607 | 8.7E-62 |
| 1 | g10769.t1 | Pfam | PF00060 | Ligand-gated ion channel | 344 | 589 | 4.6E-8 |
| 18 | g10769.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 19 | - |
| 19 | g10769.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 20 | g10769.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 14 | - |
| 26 | g10769.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 15 | 19 | - |
| 16 | g10769.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 20 | 341 | - |
| 25 | g10769.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 342 | 364 | - |
| 14 | g10769.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 365 | 370 | - |
| 23 | g10769.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 371 | 390 | - |
| 17 | g10769.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 391 | 401 | - |
| 21 | g10769.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 402 | 421 | - |
| 12 | g10769.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 422 | 538 | - |
| 24 | g10769.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 539 | 556 | - |
| 15 | g10769.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 557 | 582 | - |
| 22 | g10769.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 583 | 604 | - |
| 13 | g10769.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 605 | 617 | - |
| 7 | g10769.t1 | SUPERFAMILY | SSF53850 | Periplasmic binding protein-like II | 231 | 561 | 6.97E-18 |
| 8 | g10769.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 19 | - |
| 6 | g10769.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 342 | 364 | - |
| 5 | g10769.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 402 | 421 | - |
| 4 | g10769.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 582 | 604 | - |
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