General information for g10771.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g10771 is located on chr_1: 11888994..11890394 (+ 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 | g10771 | g10771.t1 | isoform | g10771.t1 | 11888994 | 11890394 |
| chr_1 | g10771 | g10771.t1 | exon | g10771.t1.exon1 | 11888994 | 11890394 |
| chr_1 | g10771 | g10771.t1 | cds | g10771.t1.CDS1 | 11888994 | 11890394 |
| chr_1 | g10771 | g10771.t1 | TSS | g10771.t1 | NA | NA |
| chr_1 | g10771 | g10771.t1 | TTS | g10771.t1 | NA | NA |
Sequences
>g10771.t1 Gene=g10771 Length=1401
ATGTGGATAAGAAAAATTTTCAATATTTATGCAATATTATGCAATGATACTGAGGATAAA
CTTGACTTCTATACTATTGAGCCATTTCAAAATTTGCAAAATTGTGGTGACACTTCACCA
AAGTTGCTTAATAAATTATTCAATGATAGTTTAATCAAAAATTTAGAAATTAAAAAAAAA
TTTTACAATCTTAATCAATGTCCAATTAAAGTATCAACATTCAATCAAAATGTTGCTGTC
ATTCGAGAAATTCAATCTAATGGAAATGTCATTTATAAAGGACATGAAATCAACATGATT
AAAACATTATCAAATGCTTTGAATTTCACACTTGAAATAAATTTTTATCACGGAGTCACC
GATCCATTTGGAACAGTTTATATTAATGGCACTGCAACAGGAGCTTTAGGAGATGTTCAA
GCAGAGAAAACTGACATTGCTTTAGGTGATTACTTTTTGAAAGCATCTCGGTGGAATTTT
TTAGATACAAGCAATTCGTACTTAAATTATCCAGTTTTTTGCATGATCCCAAAAAGCGAT
AAATTAACAGCAATGGAAAAAATGCTACAACCATTCAGTAAAACAGTTTGGATTTTTTTG
ATGGTCACACTTTTGATAGGACTTTTATCAGTTTTTCTAATCAACGTAAAAATTCAAAAA
TTAAAGCCAATTGTTTACGGAAATAAAGTCAATGATCCATTAATGAATATGTTGATTGTG
GTATTTGGATTACAACAGAAAAAATTACCAAAAACACATTTTGCTCGCTTCATTTTAATA
AATTTTATAATTTTGTGTCTTGTTTTGAGAAGTGTTTATCAAGGATCACTCTATAAATTT
CTCCAATCAGATGGCCGTCACAAAGATATTCAAACAATTCAAGAACTAATTGATAATAAA
TTTACATTTCTCACATATGAAACAAATCTTGATTTGATTAAAGGCACTCCAAAACTTTTA
GAAACAATTCATGTGTTAAAAAGTACAAAGAAACAAAACATTGATGAGTTAATGGCAATT
TCAAAAAGAGTCACAATGTTTGTATCTGAAGTTAATTTTATTGATTACAGTAGAACTCAT
AGAACATTTCCATATACAATAATCAATGAAAATTTTCTTACCATGAATGTCGTCATGTAC
TATCGGAAGGACTTTTATTTGAAAGAAGCAATTGACTCAAAAATTCAACATATTCTGTCA
GGTGGATTGATGAACTTTTGGCTTAGAGAATTTGACTTTACAGATTATTGGAAAATTGAA
ACATTGGATCCAATGATGTTAACTATGGACCATTTAGAAGGAGCATTTTACTTATTGATA
TTTGGGAATTTAATTGCATTTTTTGTGTTCATTACTGAAATTTTCTTGCACTTATGGGAA
CGAATTTATTATATTATCTAA
>g10771.t1 Gene=g10771 Length=466
MWIRKIFNIYAILCNDTEDKLDFYTIEPFQNLQNCGDTSPKLLNKLFNDSLIKNLEIKKK
FYNLNQCPIKVSTFNQNVAVIREIQSNGNVIYKGHEINMIKTLSNALNFTLEINFYHGVT
DPFGTVYINGTATGALGDVQAEKTDIALGDYFLKASRWNFLDTSNSYLNYPVFCMIPKSD
KLTAMEKMLQPFSKTVWIFLMVTLLIGLLSVFLINVKIQKLKPIVYGNKVNDPLMNMLIV
VFGLQQKKLPKTHFARFILINFIILCLVLRSVYQGSLYKFLQSDGRHKDIQTIQELIDNK
FTFLTYETNLDLIKGTPKLLETIHVLKSTKKQNIDELMAISKRVTMFVSEVNFIDYSRTH
RTFPYTIINENFLTMNVVMYYRKDFYLKEAIDSKIQHILSGGLMNFWLREFDFTDYWKIE
TLDPMMLTMDHLEGAFYLLIFGNLIAFFVFITEIFLHLWERIYYII
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g10771.t1 | Gene3D | G3DSA:3.40.190.10 | - | 92 | 425 | 9.8E-40 |
| 10 | g10771.t1 | Gene3D | G3DSA:3.40.190.10 | - | 171 | 377 | 9.8E-40 |
| 9 | g10771.t1 | Gene3D | G3DSA:1.10.287.70 | - | 181 | 453 | 9.8E-40 |
| 3 | g10771.t1 | PANTHER | PTHR42643:SF16 | IONOTROPIC RECEPTOR 11A-RELATED | 21 | 460 | 1.8E-58 |
| 4 | g10771.t1 | PANTHER | PTHR42643 | IONOTROPIC RECEPTOR 20A-RELATED | 21 | 460 | 1.8E-58 |
| 2 | g10771.t1 | Pfam | PF10613 | Ligated ion channel L-glutamate- and glycine-binding site | 83 | 178 | 3.4E-8 |
| 1 | g10771.t1 | Pfam | PF00060 | Ligand-gated ion channel | 194 | 442 | 7.3E-8 |
| 15 | g10771.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 195 | - |
| 18 | g10771.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 196 | 216 | - |
| 12 | g10771.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 217 | 253 | - |
| 17 | g10771.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 254 | 273 | - |
| 14 | g10771.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 274 | 434 | - |
| 16 | g10771.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 435 | 459 | - |
| 13 | g10771.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 460 | 466 | - |
| 8 | g10771.t1 | SUPERFAMILY | SSF53850 | Periplasmic binding protein-like II | 87 | 410 | 3.58E-18 |
| 7 | g10771.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 195 | 214 | - |
| 6 | g10771.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 254 | 273 | - |
| 5 | g10771.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 434 | 456 | - |
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 |
| GO:0004970 | ionotropic glutamate receptor 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