General information for g10772.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g10772 is located on chr_1: 11890700..11892517 (+ 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 | g10772 | g10772.t1 | isoform | g10772.t1 | 11890700 | 11892517 |
| chr_1 | g10772 | g10772.t1 | exon | g10772.t1.exon1 | 11890700 | 11892517 |
| chr_1 | g10772 | g10772.t1 | cds | g10772.t1.CDS1 | 11890700 | 11892517 |
| chr_1 | g10772 | g10772.t1 | TSS | g10772.t1 | NA | NA |
| chr_1 | g10772 | g10772.t1 | TTS | g10772.t1 | NA | NA |
Sequences
>g10772.t1 Gene=g10772 Length=1818
ATGTTGACTAAATGGATTATACTTTTTGTTAGTGTTTGTATTTTAAATACACAGTCGAAT
GCAATAATTTTAAATGACAATTTATTGCAAAACTATGACGATATGATTGAAGTACTAAAG
AAAACAACAGAAAAAATATTTGCCCAACACCATTGTATAATTGTCAACATTATTTCAGCA
GTTACTGATGAACAAAATGTCCACTATCAAGAACTTAAAACTGAAATTCTCAACTATTTA
TTTACAAAAGGAACTCGTGATGTGCGAATAGTTAATAGTCGTGAAAATATGTCAGATTCG
TTCAGACGATATTGCAGTATATTTTTGGTTGATAGTACAGAATCTTTTTGCGGAATTTAC
CCTCAAATCACTTCAACAAAATTCAAATTTCATGGTGTTTACATGTTGATGATTCTTGAT
AAAAATGAAGTCAATTTACAGGAAATATTTTCTATGATGTGGAAGAAAGCAATTTACAAT
GTTTATGGAATCTATGAGGAAAACAAAACTGTATCACTCACAACATTTTTCCCTTTCAAG
CAAGGCATGAAATGTGGTAATTCTGTACCAGTTATTATCAATAAATATTATAACAAACAA
TTTGAAGAAGATTTAAAGATTCCTAAAAAACTTTCAAATCTCTATGGCTGTCCCATAAAA
GTGACTGCGTTTAGACAAAATATCGCTGTCATAAGAGAAATTCAATCTGATGGATCAATA
AAATTTCATGGACACGAAATGACATTGATAAAGACACTTTCTAAGAAATTGAATTTCTCT
TTAGTTATACAATTTCGAGATGGATTTGAGCAATGGGGAAATGTTTATGAAAATGGTACA
GCAACTAAAGCACTTGCTGAAGTTATAAACAAAACAACAGACATTGCTATTGGTGATTTC
TTTTTGAAGCCAACGAGAATTAAATTTTTGGATTCTAGTTGTTCATTTCTTAATTATCCT
GTACTGCTTATAGTTCCAAAAGGAGAAAAATTGACAGCAATGGAAAAATTAATGAGACCT
TTTGAACCATTCGTTTGGATGTTACTGCTAATCTCATTTTTAGTTGGATCAACTGTAATT
TATGTTATTAACTACAAGGTAAAAAAATTGAAACCTTTTATATTTGGTTATAAAGTAACT
CAACCACTTTTGAATATGTTAGTTGTGATTCTTGGATCACAACAAAAAAAATTACCAAAA
AAGAATTTTGCTCGATTTATTCTCATGATGTTTATAATTCTCTGTCTTGTTTTGAGAAGC
ATTTATCAGGGATCACTCTATAAATTTCTTCAATCAGATGGTCGACACAAAGAAGTTGAA
ACTTTACAAGAAATGATTGAGAAAAATTTCACTTTTCTAACACATGATTTTTATTTTGAT
ATAATAAATGAAAATCCAGATGTTAAAAAATTAAGTAAAGATGTGCATGGACATGATTCT
GAAACTGTTCCGATAAAACAAAAATCTGCAACTTTTTCAAGTCGCACTACATTAATACGC
TACAGTCTAGACCACAAAGAATCTTCTTTCAAAATCTGCAAAGAACATTTCATGACAGTT
AACATAGTCTTTTATTATCCAAAAAACTTTTATTTACGCGAAGAACTTGATCTTCAAATT
GGAAAAATAATTTCAGCAGGATTAGTTGAGCATTGGATTTCAAAATATGATAACACACAT
TACTGGAATATTCAATCAAATCAAAATCCAACTGTAATGAAAATTGATCACTTAATTGGA
AGTTTTTACATTTTTGCTTTTGGATTGTTTTGTGCAACATTTGCATTTTTCATTGAATTA
ATTTTTGATAACAATTAA
>g10772.t1 Gene=g10772 Length=605
MLTKWIILFVSVCILNTQSNAIILNDNLLQNYDDMIEVLKKTTEKIFAQHHCIIVNIISA
VTDEQNVHYQELKTEILNYLFTKGTRDVRIVNSRENMSDSFRRYCSIFLVDSTESFCGIY
PQITSTKFKFHGVYMLMILDKNEVNLQEIFSMMWKKAIYNVYGIYEENKTVSLTTFFPFK
QGMKCGNSVPVIINKYYNKQFEEDLKIPKKLSNLYGCPIKVTAFRQNIAVIREIQSDGSI
KFHGHEMTLIKTLSKKLNFSLVIQFRDGFEQWGNVYENGTATKALAEVINKTTDIAIGDF
FLKPTRIKFLDSSCSFLNYPVLLIVPKGEKLTAMEKLMRPFEPFVWMLLLISFLVGSTVI
YVINYKVKKLKPFIFGYKVTQPLLNMLVVILGSQQKKLPKKNFARFILMMFIILCLVLRS
IYQGSLYKFLQSDGRHKEVETLQEMIEKNFTFLTHDFYFDIINENPDVKKLSKDVHGHDS
ETVPIKQKSATFSSRTTLIRYSLDHKESSFKICKEHFMTVNIVFYYPKNFYLREELDLQI
GKIISAGLVEHWISKYDNTHYWNIQSNQNPTVMKIDHLIGSFYIFAFGLFCATFAFFIEL
IFDNN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g10772.t1 | Coils | Coil | Coil | 25 | 45 | - |
| 8 | g10772.t1 | Gene3D | G3DSA:3.40.190.10 | - | 241 | 571 | 4.2E-42 |
| 9 | g10772.t1 | Gene3D | G3DSA:3.40.190.10 | - | 320 | 522 | 4.2E-42 |
| 7 | g10772.t1 | Gene3D | G3DSA:1.10.287.70 | - | 330 | 599 | 4.2E-42 |
| 3 | g10772.t1 | PANTHER | PTHR42643:SF16 | IONOTROPIC RECEPTOR 11A-RELATED | 39 | 603 | 3.4E-62 |
| 4 | g10772.t1 | PANTHER | PTHR42643 | IONOTROPIC RECEPTOR 20A-RELATED | 39 | 603 | 3.4E-62 |
| 2 | g10772.t1 | Pfam | PF10613 | Ligated ion channel L-glutamate- and glycine-binding site | 234 | 326 | 2.8E-7 |
| 1 | g10772.t1 | Pfam | PF00060 | Ligand-gated ion channel | 345 | 589 | 4.8E-9 |
| 16 | g10772.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 21 | - |
| 17 | g10772.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 4 | - |
| 18 | g10772.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 5 | 15 | - |
| 23 | g10772.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 21 | - |
| 15 | g10772.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 22 | 343 | - |
| 22 | g10772.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 344 | 363 | - |
| 11 | g10772.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 364 | 374 | - |
| 19 | g10772.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 375 | 391 | - |
| 13 | g10772.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 392 | 402 | - |
| 21 | g10772.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 403 | 422 | - |
| 12 | g10772.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 423 | 581 | - |
| 20 | g10772.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 582 | 602 | - |
| 14 | g10772.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 603 | 605 | - |
| 5 | g10772.t1 | SUPERFAMILY | SSF53850 | Periplasmic binding protein-like II | 239 | 557 | 3.04E-18 |
| 6 | g10772.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 21 | - |
| 24 | g10772.t1 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 21 | - |
| 25 | g10772.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 343 | 365 | - |
| 28 | g10772.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 374 | 393 | - |
| 26 | g10772.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 403 | 422 | - |
| 27 | g10772.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 579 | 601 | - |
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