General information for g10773.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g10773 is located on chr_1: 11892944..11894881 (+ 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 | g10773 | g10773.t1 | isoform | g10773.t1 | 11892944 | 11894881 |
| chr_1 | g10773 | g10773.t1 | exon | g10773.t1.exon1 | 11892944 | 11893916 |
| chr_1 | g10773 | g10773.t1 | cds | g10773.t1.CDS1 | 11892944 | 11893916 |
| chr_1 | g10773 | g10773.t1 | exon | g10773.t1.exon2 | 11893971 | 11894881 |
| chr_1 | g10773 | g10773.t1 | cds | g10773.t1.CDS2 | 11893971 | 11894881 |
| chr_1 | g10773 | g10773.t1 | TSS | g10773.t1 | NA | NA |
| chr_1 | g10773 | g10773.t1 | TTS | g10773.t1 | NA | NA |
Sequences
>g10773.t1 Gene=g10773 Length=1884
ATGTCTTTGTTACTTTTAAATTATTCATCTGCAAAAGTAAATTTTAAATTACTTCATAAT
GATGGTGATTTCATTAACATTGACCTTGTAAATGCTGTCAAGTATATTCTTAATGAGGTA
TTTTTCAAACATCATAGAAATGTTAATTTAATTAGTGCAATGAAAGATCAAAATAATAAT
TCACTCAAAGATCTTAGAAATGCAATTCTTTATGAACCACTTTTTGATAAAACAATTTAC
ATGGTCCAATTGGAAAATCATACTGTCATAACACGTGCATATAAAAATGTAAAAATTAAT
TTTGTGATAATTATTGATTCATACGACACATTTATAAAACTTAATGAACTTATCACCATC
GATCGATTTAATTTTCGTGGTCATTATTTATTTGTATTTACAAAAGGACATGTTGGAGCT
GAGAACACTCAAAAAATGTTTAGTATTATGTGGAAAAAAGGATTATACAATGTGAACTTT
ATGTATCAAGATAAAAATACGATTAGGATGACAAATTTTAGACCATTTCAACGTGATACA
TGTCACGATATGGATGAAATGTTAGTTGATACTTTTCAAGATGGATCATTTAAAAAAGCA
AATCCAAAAGAAATGTTTTCTAAAAATAAATTTAAAAATCTTTACAAATGTCCTATAAAA
ATTGTAACTTTTGAAAGATGTCCAGCAATGTGCTACAACAAGAAAGAAAATAAATTTTCA
GGATATGACTGGGAATTAATTCAAGAGATTTCCCAACAATTAAATTTTAAAATGGAAGTC
AAATATTTAGAAGGAGAAGAACAATGGGGAACAATTTTAAGCAATGGCTCGCTTACTGGA
GGATTAAAAGAACTTGTTGAAAAGCGTGCTGAAATTGGTATTGGAAATTATTTCTTGAGG
GAAAGTCGAACTAAAATTGTAGATTATAGCACTGCATATTTTAATATTCCGATCGTGTTA
GTAATTCCACCAGCCACAAAACTGTCACCATTTGAGAAACTTCTTCGACCATTTGAAATA
ATTATTTGGATTTTACTATTCATTACATTTAGCATTGGTCTTCTTGTCATTTTTATGATT
AATTATAAAATCAAAAAAATCAAAAATTTTGTATTTGGAAGAAAAGTGAACACACCAACA
TTAAACATGTTTATTGCAATATTCGGTCAACAGCAAACAATTTTGCCAGGAAGAAATTAT
GCGAGATTTATTTTAATGATGTTTCTTATTTTTTGTCTTGTTAATCGAAATGTTTATCAA
GGTGCACTTTATATTTTCTTACAATCTGATGGACGTCATAAAGACATTAAGAGTATTGAT
GAAATGATTGAAAAAGATTTTAAATTTTACGTTTATGAATCTTATATTGATTTTGTTCAT
AATTCATCAGAAATTTATAAGAGAAAAATTATTATCAGAAATGAATCAGAATTGCCATTT
TCCAAAGAAGTTGATGAAAATTTAAAAGCAGCTTTTATGACACCACAGACAAATGTTATT
AACCGAAATCAAATGAATCAAGGAAAATTTTCACTCAAAGTTTGTGACGAGCAGGTCTCA
GTCATTAATATTGTTATGTTTTTTACTAGAAGCTTTTTTCTCAAATTAACAATTGATGAA
AAACTTCATTATTTTGATGCAAATGGACTTTTGACTTATTGGATTAACAAACATGCAGAT
AAAAGATATTTGAATGTCAAAGATGCTGATACTGGACCAAAAATATTACTTGTAGAACAT
TTATTTGGTGTTTTTAATATTATGCTGATTGGATATGCAATAGCAACTATTATTTTTATT
TTAGAACTCACTGTTTTTAAAATAAAAGAAATTAAAGATAGAAGAGCTTCATCAAAAATT
ATTGCTATCAGCTCAGTATCTTAG
>g10773.t1 Gene=g10773 Length=627
MSLLLLNYSSAKVNFKLLHNDGDFINIDLVNAVKYILNEVFFKHHRNVNLISAMKDQNNN
SLKDLRNAILYEPLFDKTIYMVQLENHTVITRAYKNVKINFVIIIDSYDTFIKLNELITI
DRFNFRGHYLFVFTKGHVGAENTQKMFSIMWKKGLYNVNFMYQDKNTIRMTNFRPFQRDT
CHDMDEMLVDTFQDGSFKKANPKEMFSKNKFKNLYKCPIKIVTFERCPAMCYNKKENKFS
GYDWELIQEISQQLNFKMEVKYLEGEEQWGTILSNGSLTGGLKELVEKRAEIGIGNYFLR
ESRTKIVDYSTAYFNIPIVLVIPPATKLSPFEKLLRPFEIIIWILLFITFSIGLLVIFMI
NYKIKKIKNFVFGRKVNTPTLNMFIAIFGQQQTILPGRNYARFILMMFLIFCLVNRNVYQ
GALYIFLQSDGRHKDIKSIDEMIEKDFKFYVYESYIDFVHNSSEIYKRKIIIRNESELPF
SKEVDENLKAAFMTPQTNVINRNQMNQGKFSLKVCDEQVSVINIVMFFTRSFFLKLTIDE
KLHYFDANGLLTYWINKHADKRYLNVKDADTGPKILLVEHLFGVFNIMLIGYAIATIIFI
LELTVFKIKEIKDRRASSKIIAISSVS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g10773.t1 | Gene3D | G3DSA:3.40.190.10 | - | 237 | 574 | 9.2E-40 |
| 11 | g10773.t1 | Gene3D | G3DSA:3.40.190.10 | - | 317 | 524 | 9.2E-40 |
| 9 | g10773.t1 | Gene3D | G3DSA:1.10.287.70 | - | 327 | 602 | 9.2E-40 |
| 2 | g10773.t1 | PANTHER | PTHR42643:SF16 | IONOTROPIC RECEPTOR 11A-RELATED | 88 | 610 | 1.3E-60 |
| 3 | g10773.t1 | PANTHER | PTHR42643 | IONOTROPIC RECEPTOR 20A-RELATED | 88 | 610 | 1.3E-60 |
| 1 | g10773.t1 | Pfam | PF10613 | Ligated ion channel L-glutamate- and glycine-binding site | 233 | 322 | 1.1E-12 |
| 14 | g10773.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 305 | - |
| 18 | g10773.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 306 | 325 | - |
| 16 | g10773.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 326 | 339 | - |
| 19 | g10773.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 340 | 360 | - |
| 12 | g10773.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 361 | 399 | - |
| 20 | g10773.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 400 | 419 | - |
| 15 | g10773.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 420 | 580 | - |
| 17 | g10773.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 581 | 605 | - |
| 13 | g10773.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 606 | 627 | - |
| 8 | g10773.t1 | SMART | SM00918 | Lig_chan_Glu_bd_2 | 228 | 287 | 3.6E-4 |
| 7 | g10773.t1 | SUPERFAMILY | SSF53850 | Periplasmic binding protein-like II | 216 | 558 | 6.84E-22 |
| 5 | g10773.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 340 | 362 | - |
| 6 | g10773.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 400 | 419 | - |
| 4 | g10773.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 584 | 606 | - |
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: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