General information for g10654.t1
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.t1 | isoform | g10654.t1 | 11121346 | 11129112 |
| chr_1 | g10654 | g10654.t1 | exon | g10654.t1.exon1 | 11121346 | 11121404 |
| chr_1 | g10654 | g10654.t1 | cds | g10654.t1.CDS1 | 11121346 | 11121404 |
| chr_1 | g10654 | g10654.t1 | exon | g10654.t1.exon2 | 11123842 | 11123996 |
| chr_1 | g10654 | g10654.t1 | cds | g10654.t1.CDS2 | 11123842 | 11123996 |
| chr_1 | g10654 | g10654.t1 | exon | g10654.t1.exon3 | 11124052 | 11124114 |
| chr_1 | g10654 | g10654.t1 | cds | g10654.t1.CDS3 | 11124052 | 11124114 |
| chr_1 | g10654 | g10654.t1 | exon | g10654.t1.exon4 | 11127947 | 11128095 |
| chr_1 | g10654 | g10654.t1 | cds | g10654.t1.CDS4 | 11127947 | 11128095 |
| chr_1 | g10654 | g10654.t1 | exon | g10654.t1.exon5 | 11128162 | 11128296 |
| chr_1 | g10654 | g10654.t1 | cds | g10654.t1.CDS5 | 11128162 | 11128296 |
| chr_1 | g10654 | g10654.t1 | exon | g10654.t1.exon6 | 11128512 | 11128699 |
| chr_1 | g10654 | g10654.t1 | cds | g10654.t1.CDS6 | 11128512 | 11128699 |
| chr_1 | g10654 | g10654.t1 | exon | g10654.t1.exon7 | 11128755 | 11128858 |
| chr_1 | g10654 | g10654.t1 | cds | g10654.t1.CDS7 | 11128755 | 11128858 |
| chr_1 | g10654 | g10654.t1 | exon | g10654.t1.exon8 | 11128922 | 11129112 |
| chr_1 | g10654 | g10654.t1 | cds | g10654.t1.CDS8 | 11128922 | 11129112 |
| chr_1 | g10654 | g10654.t1 | TTS | g10654.t1 | 11129207 | 11129207 |
| chr_1 | g10654 | g10654.t1 | TSS | g10654.t1 | NA | NA |
Sequences
>g10654.t1 Gene=g10654 Length=1044
ATGGTTTATGTGCATAATTTATCGAGAGTGATCATCATCATCGTATTCTGCAATTTACAA
TTAATTGTTACAATATCACCATCGATAATCTGTAATCGTATACGTGGACTTTCACCCAAA
CAGAAGAAAATTTGTGCTGAATCACCTGATGCATTTATAGCTTTATCAAATGGTCATCAA
TTGGGTGCACTTGAGTGTCAACATCAATTTAAAGATAACAGATGGAATTGTTCTGAGGCA
TGGTTAAAAGATATATTTGGACATTTCATGGTATTAGGCTCAAAAGAGGCAGCATTCACG
TATGCAATTGCAAATGCTGGTGTGGTTTATGCAATAGCAGCAGCATGCAGCCGTGGTAAT
ATCTCAATATGTGGTTGTGATCAGTATTATAGGCACCAAATTGCTTATCAGGATAAAAAT
TTTCAGCCATGGAAGTGGGGAGGATGCTCCGTTGACATAGACTTTGGTATAAGATTTGCA
AGAAAATTTCTCGATGCACGCGAAATTGAAGCTGATGCTCGCAGTGCAATGAACCTACAT
AACAACCAAGTTGGAAGAAAGATTGTGAGAAAGTTGTTGAAAAAAGACTGTTTATGTCAC
GGTATTTCTGGCAGTTGTTCATTAAGAACGTGCTGGAAAACATTGCCACAATTTAGAGAA
ATTGGAGATACACTAATGATGAAATATAAAAAGGCAAAACAAGTAGCAGCACAAAACAAA
GATACGGGATATAATTTAGTCATTAGAAGAAGTAAAATAGACAAGAAACCAATAATGCCA
AAGACATTAGATTTAATTTATCTAGAGCCATCACCAACATATTGTGAAAAAGATATTTAC
TTAGGATCATCTGGCACTCATGGACGTAAATGTAATAGAACATCAAAAGGCACCGATAGT
TGTTCAATGTTATGTTGTGGTCGCGGTTATATAACAAAACTCTTTCATCGAACATGGCAA
TGTAATTGCAAATTTATTTGGGAGATTATGAATGTTAAATGTGACATATGTAGCGAACGT
ACTGAACAATATTTTTGTAAATAA
>g10654.t1 Gene=g10654 Length=347
MVYVHNLSRVIIIIVFCNLQLIVTISPSIICNRIRGLSPKQKKICAESPDAFIALSNGHQ
LGALECQHQFKDNRWNCSEAWLKDIFGHFMVLGSKEAAFTYAIANAGVVYAIAAACSRGN
ISICGCDQYYRHQIAYQDKNFQPWKWGGCSVDIDFGIRFARKFLDAREIEADARSAMNLH
NNQVGRKIVRKLLKKDCLCHGISGSCSLRTCWKTLPQFREIGDTLMMKYKKAKQVAAQNK
DTGYNLVIRRSKIDKKPIMPKTLDLIYLEPSPTYCEKDIYLGSSGTHGRKCNRTSKGTDS
CSMLCCGRGYITKLFHRTWQCNCKFIWEIMNVKCDICSERTEQYFCK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g10654.t1 | Gene3D | G3DSA:3.30.2460.20 | - | 286 | 347 | 2.1E-10 |
| 2 | g10654.t1 | PANTHER | PTHR12027 | WNT RELATED | 3 | 346 | 8.3E-117 |
| 3 | g10654.t1 | PANTHER | PTHR12027:SF73 | PROTEIN WNT-7B | 3 | 346 | 8.3E-117 |
| 4 | g10654.t1 | PRINTS | PR01349 | Wnt protein signature | 95 | 109 | 8.0E-28 |
| 8 | g10654.t1 | PRINTS | PR01349 | Wnt protein signature | 114 | 127 | 8.0E-28 |
| 6 | g10654.t1 | PRINTS | PR01349 | Wnt protein signature | 144 | 156 | 8.0E-28 |
| 5 | g10654.t1 | PRINTS | PR01349 | Wnt protein signature | 198 | 212 | 8.0E-28 |
| 7 | g10654.t1 | PRINTS | PR01349 | Wnt protein signature | 264 | 275 | 8.0E-28 |
| 1 | g10654.t1 | Pfam | PF00110 | wnt family | 34 | 347 | 2.7E-110 |
| 12 | g10654.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 6 | - |
| 14 | g10654.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 30 | - |
| 13 | g10654.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 31 | 347 | - |
| 10 | g10654.t1 | SMART | SM00097 | wnt1_3 | 33 | 347 | 3.0E-139 |
| 9 | g10654.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 29 | - |
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 transcript has been annotated with K00572 (wingless-type MMTV integration site family, member 7)
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. There were no conditions that were differentially expressed