General information for g10654.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein Wnt-2.
Parent gene
- The parent gene g10654 is located on chr_1: 11123842..11129112 (+ 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 | g10654 | g10654.t2 | isoform | g10654.t2 | 11123842 | 11129112 |
| chr_1 | g10654 | g10654.t2 | exon | g10654.t2.exon1 | 11123842 | 11123996 |
| chr_1 | g10654 | g10654.t2 | exon | g10654.t2.exon2 | 11124052 | 11124114 |
| chr_1 | g10654 | g10654.t2 | cds | g10654.t2.CDS1 | 11124105 | 11124114 |
| chr_1 | g10654 | g10654.t2 | exon | g10654.t2.exon3 | 11127947 | 11128095 |
| chr_1 | g10654 | g10654.t2 | cds | g10654.t2.CDS2 | 11127947 | 11128095 |
| chr_1 | g10654 | g10654.t2 | exon | g10654.t2.exon4 | 11128162 | 11128296 |
| chr_1 | g10654 | g10654.t2 | cds | g10654.t2.CDS3 | 11128162 | 11128296 |
| chr_1 | g10654 | g10654.t2 | exon | g10654.t2.exon5 | 11128512 | 11128699 |
| chr_1 | g10654 | g10654.t2 | cds | g10654.t2.CDS4 | 11128512 | 11128699 |
| chr_1 | g10654 | g10654.t2 | exon | g10654.t2.exon6 | 11128755 | 11128858 |
| chr_1 | g10654 | g10654.t2 | cds | g10654.t2.CDS5 | 11128755 | 11128858 |
| chr_1 | g10654 | g10654.t2 | exon | g10654.t2.exon7 | 11128922 | 11129112 |
| chr_1 | g10654 | g10654.t2 | cds | g10654.t2.CDS6 | 11128922 | 11129112 |
| chr_1 | g10654 | g10654.t2 | TTS | g10654.t2 | 11129207 | 11129207 |
| chr_1 | g10654 | g10654.t2 | TSS | g10654.t2 | NA | NA |
Sequences
>g10654.t2 Gene=g10654 Length=985
ATTAATTGTTACAATATCACCATCGATAATCTGTAATCGTATACGTGGACTTTCACCCAA
ACAGAAGAAAATTTGTGCTGAATCACCTGATGCATTTATAGCTTTATCAAATGGTCATCA
ATTGGGTGCACTTGAGTGTCAACATCAATTTAAAGATAACAGATGGAATTGTTCTGAGGC
ATGGTTAAAAGATATATTTGGACATTTCATGGTATTAGGCTCAAAAGAGGCAGCATTCAC
GTATGCAATTGCAAATGCTGGTGTGGTTTATGCAATAGCAGCAGCATGCAGCCGTGGTAA
TATCTCAATATGTGGTTGTGATCAGTATTATAGGCACCAAATTGCTTATCAGGATAAAAA
TTTTCAGCCATGGAAGTGGGGAGGATGCTCCGTTGACATAGACTTTGGTATAAGATTTGC
AAGAAAATTTCTCGATGCACGCGAAATTGAAGCTGATGCTCGCAGTGCAATGAACCTACA
TAACAACCAAGTTGGAAGAAAGATTGTGAGAAAGTTGTTGAAAAAAGACTGTTTATGTCA
CGGTATTTCTGGCAGTTGTTCATTAAGAACGTGCTGGAAAACATTGCCACAATTTAGAGA
AATTGGAGATACACTAATGATGAAATATAAAAAGGCAAAACAAGTAGCAGCACAAAACAA
AGATACGGGATATAATTTAGTCATTAGAAGAAGTAAAATAGACAAGAAACCAATAATGCC
AAAGACATTAGATTTAATTTATCTAGAGCCATCACCAACATATTGTGAAAAAGATATTTA
CTTAGGATCATCTGGCACTCATGGACGTAAATGTAATAGAACATCAAAAGGCACCGATAG
TTGTTCAATGTTATGTTGTGGTCGCGGTTATATAACAAAACTCTTTCATCGAACATGGCA
ATGTAATTGCAAATTTATTTGGGAGATTATGAATGTTAAATGTGACATATGTAGCGAACG
TACTGAACAATATTTTTGTAAATAA
>g10654.t2 Gene=g10654 Length=258
MVLGSKEAAFTYAIANAGVVYAIAAACSRGNISICGCDQYYRHQIAYQDKNFQPWKWGGC
SVDIDFGIRFARKFLDAREIEADARSAMNLHNNQVGRKIVRKLLKKDCLCHGISGSCSLR
TCWKTLPQFREIGDTLMMKYKKAKQVAAQNKDTGYNLVIRRSKIDKKPIMPKTLDLIYLE
PSPTYCEKDIYLGSSGTHGRKCNRTSKGTDSCSMLCCGRGYITKLFHRTWQCNCKFIWEI
MNVKCDICSERTEQYFCK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g10654.t2 | Gene3D | G3DSA:3.30.2460.20 | - | 197 | 258 | 0 |
| 2 | g10654.t2 | PANTHER | PTHR12027 | WNT RELATED | 4 | 257 | 0 |
| 3 | g10654.t2 | PANTHER | PTHR12027:SF73 | PROTEIN WNT-7B | 4 | 257 | 0 |
| 6 | g10654.t2 | PRINTS | PR01349 | Wnt protein signature | 6 | 20 | 0 |
| 8 | g10654.t2 | PRINTS | PR01349 | Wnt protein signature | 25 | 38 | 0 |
| 4 | g10654.t2 | PRINTS | PR01349 | Wnt protein signature | 55 | 67 | 0 |
| 5 | g10654.t2 | PRINTS | PR01349 | Wnt protein signature | 109 | 123 | 0 |
| 7 | g10654.t2 | PRINTS | PR01349 | Wnt protein signature | 175 | 186 | 0 |
| 1 | g10654.t2 | Pfam | PF00110 | wnt family | 4 | 258 | 0 |
| 11 | g10654.t2 | ProSiteProfiles | PS51257 | Prokaryotic membrane lipoprotein lipid attachment site profile. | 1 | 27 | 5 |
| 9 | g10654.t2 | SMART | SM00097 | wnt1_3 | 1 | 258 | 0 |
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:0007275 | multicellular organism development | BP |
| GO:0016055 | Wnt signaling pathway | BP |
| GO:0005576 | extracellular region | CC |
| GO:0005102 | signaling receptor binding | 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.
