General information for g11560.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Soluble calcium-activated nucleotidase 1.
Parent gene
- The parent gene g11560 is located on chr_1: 17143491..17144771 (+ 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 | g11560 | g11560.t3 | TSS | g11560.t3 | 17143381 | 17143381 |
| chr_1 | g11560 | g11560.t3 | isoform | g11560.t3 | 17143491 | 17144771 |
| chr_1 | g11560 | g11560.t3 | exon | g11560.t3.exon1 | 17143491 | 17143963 |
| chr_1 | g11560 | g11560.t3 | cds | g11560.t3.CDS1 | 17143491 | 17143963 |
| chr_1 | g11560 | g11560.t3 | exon | g11560.t3.exon2 | 17144030 | 17144771 |
| chr_1 | g11560 | g11560.t3 | cds | g11560.t3.CDS2 | 17144030 | 17144771 |
| chr_1 | g11560 | g11560.t3 | TTS | g11560.t3 | 17144833 | 17144833 |
Sequences
>g11560.t3 Gene=g11560 Length=1215
ATGAAGAAAGCTGCATCATTTAATGTATTAGGCGAAGGAGCTCTTCAAAATCGATGGCGA
CAAAATGGAGCTAGTTTTATTCGGATTAGGAAAAATAAATTTAGATTTAATTTTATATAT
CTAATAGCTATTGCTTTGGTTATGCTAATTGTGTACATTACTCTGCCAGCTGGTCGTCAT
ATTACATCATATCGCCATTTACATGCAGACAAAGATACAAATACATCGCCTATTTTTAGC
AATATAGTTGTAAATTATAATGCAGTTTATCCTCTAACGAAACCAATTGTGAATGCTCAT
CAGAAGACTACTTTATATCGCATAGGTCTAATAGCAGATCTCGATACAAATTCAAAACGC
AGTAAAAAGGACGTGTATTCGAGTTTTTATATGACAGGATGGCTCACAATTTCTAGTACT
CACACGTCTTTTGAATTCAAGTTTGATGAAATTACGAAAGAAATCACGAGCGGCTTTGTT
TTAGGACGTGGCATGGAACTTTCTGAGCTAGTCACGTTTAATGGGAAACTTCTGACATTT
GATGATCGCACTGGGATTGTTTTTGAAATCAATACACAAGATTCGAGTTTATCACCATGG
GTTATACTTACAGACGGAGAGAGAATCTCACCTAAAGGTTTCAAATCTGAATGGGCTACA
GTAAAAAATCAACAATTATTTGTTGGAAGCATGGGTAAAGAGTGGACAAATGCAGGAGGC
GATTTTGAAAATAATAATCCTATGATGATGAAAGTTATTAGTGTGAATGGTGAAGTGAAA
ACTCTCAATTGGGTAAAAAATTACAAGGCAATTAGAAGTGCATTGAAGATTGAGTGGCCA
GGGTATTTGATCCATGAGTCTGGTGCATATAGCGACTTTCAAAAAAAGTGGTTCTTTTTA
CCAAGACGATGCTCAACAACAAAATATAACGAGACACTTGATGAGACAAAGGGTTGCAAC
TACCTGATAATTGCAGATGAAACATTTAGTCAAATTCAAACAGTACAGATTGGTGAATTA
AAACCTTCACGAGGATACTCCTCTTTTAAATTTGTTCCTGGAACACATGATAGTATTATT
GTTGCGTTAAAAACAGAGGAATTGAATGGATCAACGAGCACTTTTATTACAGTGTTTGAT
ATTAAAGGTAATATTCTTCATCCGGATGAAAAAATTCAGACAGAATTCAAATATGAAGGC
TTCGAGTTTATTTAG
>g11560.t3 Gene=g11560 Length=404
MKKAASFNVLGEGALQNRWRQNGASFIRIRKNKFRFNFIYLIAIALVMLIVYITLPAGRH
ITSYRHLHADKDTNTSPIFSNIVVNYNAVYPLTKPIVNAHQKTTLYRIGLIADLDTNSKR
SKKDVYSSFYMTGWLTISSTHTSFEFKFDEITKEITSGFVLGRGMELSELVTFNGKLLTF
DDRTGIVFEINTQDSSLSPWVILTDGERISPKGFKSEWATVKNQQLFVGSMGKEWTNAGG
DFENNNPMMMKVISVNGEVKTLNWVKNYKAIRSALKIEWPGYLIHESGAYSDFQKKWFFL
PRRCSTTKYNETLDETKGCNYLIIADETFSQIQTVQIGELKPSRGYSSFKFVPGTHDSII
VALKTEELNGSTSTFITVFDIKGNILHPDEKIQTEFKYEGFEFI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g11560.t3 | Gene3D | G3DSA:2.120.10.100 | - | 72 | 404 | 3.4E-129 |
| 2 | g11560.t3 | PANTHER | PTHR13023:SF3 | SOLUBLE CALCIUM-ACTIVATED NUCLEOTIDASE 1 | 27 | 404 | 2.0E-133 |
| 3 | g11560.t3 | PANTHER | PTHR13023 | APYRASE | 27 | 404 | 2.0E-133 |
| 1 | g11560.t3 | Pfam | PF06079 | Apyrase | 114 | 404 | 2.9E-117 |
| 7 | g11560.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 37 | - |
| 9 | g11560.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 38 | 55 | - |
| 8 | g11560.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 56 | 404 | - |
| 5 | g11560.t3 | SUPERFAMILY | SSF101887 | Apyrase | 86 | 404 | 5.23E-116 |
| 4 | g11560.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 36 | 58 | - |
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:0005509 | calcium ion binding | MF |
| GO:0017110 | nucleoside-diphosphatase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K12304 (soluble calcium-activated nucleotidase 1)
Pathway
- This transcript belongs to the following pathways
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.
