General information for g10580.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Axin.
Parent gene
- The parent gene g10580 is located on chr_1: 10519596..10522743 (- 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 | g10580 | g10580.t2 | isoform | g10580.t2 | 10519596 | 10520497 |
| chr_1 | g10580 | g10580.t2 | exon | g10580.t2.exon1 | 10519596 | 10519722 |
| chr_1 | g10580 | g10580.t2 | cds | g10580.t2.CDS1 | 10519596 | 10519722 |
| chr_1 | g10580 | g10580.t2 | exon | g10580.t2.exon2 | 10519816 | 10520088 |
| chr_1 | g10580 | g10580.t2 | cds | g10580.t2.CDS2 | 10519816 | 10520088 |
| chr_1 | g10580 | g10580.t2 | exon | g10580.t2.exon3 | 10520151 | 10520327 |
| chr_1 | g10580 | g10580.t2 | cds | g10580.t2.CDS3 | 10520151 | 10520327 |
| chr_1 | g10580 | g10580.t2 | exon | g10580.t2.exon4 | 10520410 | 10520497 |
| chr_1 | g10580 | g10580.t2 | cds | g10580.t2.CDS4 | 10520410 | 10520483 |
| chr_1 | g10580 | g10580.t2 | TSS | g10580.t2 | NA | NA |
| chr_1 | g10580 | g10580.t2 | TTS | g10580.t2 | NA | NA |
Sequences
>g10580.t2 Gene=g10580 Length=665
GCATACATTCATCAATGAGGTCTTCAAAATCAATGCCAGATTCAAATATGCGTAAATTTT
CAAAATGGGGTAGCATTAATACGGATAGTGGTATCAGCTTATTTTCATCTGATACGATGA
CAATTAAGCATAAGGATGCAATGAGTATATCAAGTGGTAGCAGTAGTAGCACATCAAAAT
CTAGAACAATCGTGGCAAGTGAAGTAGGTTCAAGTATTAACTCTCATAACAAATTAACGC
CGCAGCAAATAGAAGAACTGAGAAGATCAAAACGATATCAGCAACAACAACCACCAGCTT
TGCCAGTTAAAAATGTTATACCTCCACCATTACCTGCCAAAAATTTACCTCAATTACCAC
AACAACAGCAATTACATCAAACTCAACCTTCCTCAGTTGTTGCTCCACCAGAACATACAA
CAACTGTTGTTTGTTCATTTTGCGACGAAGACGTTCCATATCGTATTAAAATCCCAGGTA
AAAGTCCATTAACTTTAAAGCAGTTCAAGGAATCATTACCGAAGAAAGGAAACTATAGAT
TTTTCTTTAAAACTCGTTGTGAAGATGAAGATAATCCTATAATTCAAGAAGAAGTTGTAA
ATGATTCAGATGTGCTACCGCTTTTTGATGATAAAGTGATGGCAACAGTGAAATTGGCCT
CTTAA
>g10580.t2 Gene=g10580 Length=216
MRSSKSMPDSNMRKFSKWGSINTDSGISLFSSDTMTIKHKDAMSISSGSSSSTSKSRTIV
ASEVGSSINSHNKLTPQQIEELRRSKRYQQQQPPALPVKNVIPPPLPAKNLPQLPQQQQL
HQTQPSSVVAPPEHTTTVVCSFCDEDVPYRIKIPGKSPLTLKQFKESLPKKGNYRFFFKT
RCEDEDNPIIQEEVVNDSDVLPLFDDKVMATVKLAS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g10580.t2 | Gene3D | G3DSA:3.10.20.380 | - | 132 | 216 | 7.6E-30 |
| 6 | g10580.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 41 | 76 | - |
| 7 | g10580.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 41 | 80 | - |
| 2 | g10580.t2 | PANTHER | PTHR46102 | AXIN | 14 | 214 | 4.1E-40 |
| 3 | g10580.t2 | PANTHER | PTHR46102:SF2 | AXIN | 14 | 214 | 4.1E-40 |
| 1 | g10580.t2 | Pfam | PF00778 | DIX domain | 135 | 213 | 3.1E-30 |
| 9 | g10580.t2 | ProSiteProfiles | PS50841 | DIX domain profile. | 133 | 216 | 21.673 |
| 5 | g10580.t2 | SMART | SM00021 | dax_2 | 133 | 216 | 1.2E-15 |
| 4 | g10580.t2 | SUPERFAMILY | SSF54236 | Ubiquitin-like | 135 | 214 | 4.75E-25 |
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:0090090 | negative regulation of canonical Wnt signaling pathway | BP |
KEGG
Orthology
- This transcript has been annotated with K04385 (axin 2)
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.
