General information for g5742.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein wingless.
Parent gene
- The parent gene g5742 is located on chr_2: 11522426..11523810 (- 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_2 | g5742 | g5742.t2 | TTS | g5742.t2 | 11507517 | 11507517 |
| chr_2 | g5742 | g5742.t2 | isoform | g5742.t2 | 11508072 | 11523416 |
| chr_2 | g5742 | g5742.t2 | exon | g5742.t2.exon1 | 11508072 | 11508354 |
| chr_2 | g5742 | g5742.t2 | cds | g5742.t2.CDS1 | 11508073 | 11508354 |
| chr_2 | g5742 | g5742.t2 | exon | g5742.t2.exon2 | 11509356 | 11509481 |
| chr_2 | g5742 | g5742.t2 | cds | g5742.t2.CDS2 | 11509356 | 11509481 |
| chr_2 | g5742 | g5742.t2 | exon | g5742.t2.exon3 | 11509700 | 11509869 |
| chr_2 | g5742 | g5742.t2 | cds | g5742.t2.CDS3 | 11509700 | 11509869 |
| chr_2 | g5742 | g5742.t2 | exon | g5742.t2.exon4 | 11517629 | 11517894 |
| chr_2 | g5742 | g5742.t2 | cds | g5742.t2.CDS4 | 11517629 | 11517894 |
| chr_2 | g5742 | g5742.t2 | exon | g5742.t2.exon5 | 11523307 | 11523416 |
| chr_2 | g5742 | g5742.t2 | cds | g5742.t2.CDS5 | 11523307 | 11523416 |
| chr_2 | g5742 | g5742.t2 | TSS | g5742.t2 | 11523809 | 11523809 |
Sequences
>g5742.t2 Gene=g5742 Length=955
ATGGATATGCTAAAGTTATTTTATCTTCTCATCATGGCATTATGTGCCTATGTCAATGCC
GACGCCGAAAAGCAATCAAAACAAAATCGTGGACGTGGATCGATATGGTGGGGAATAGCA
AAAGCTGGTGAACCAAACAACATTTCTCCAGTGACACCAACACATGTCTATATGGACCCA
GCAATACATGCTACACTTAGAAGAAAGCAACGACGATTAGCACGAGAAAATCCAGGAATT
TTAGCAGCAATTGCAAAAGGTGCAAACATGGCAATTGCCGAATGCCAACATCAATTCAGA
AATCGCAGATGGAACTGCTCAACTCGAAATTTCCTACAACGTGGAAAAAATCTTTTCGGT
AAAATTGTCGATCGCGGTTGTAGAGAGACTGCATTTATTTATGCTATAACTAGTGCTGCA
GTTACACATTCAATTGCTCGTGCTTGCAGTGAGGGATCAATTGAATCATGTACATGCGAT
TGGTCACATCAAAATGAACCACCACAAGCTAGTAAATCTGAATCAGTTTCTGATGTTAGA
ATGTGGGAATGGGGAGGATGCTCAGACAATATTGTATTCGGCTACAAACTCGCTAGGGAA
TTTGTCGACACCGGTGAACGAGGACGATCATTGCGTGAGAAAATGAACTTGCACAATAAT
GAAGCAGGCCGTCACGTGCAGTCAGAAATGCGTGAAGAATGCAAGTGCCATGGAATGTCG
GGATCATGTTCAGTAAAAACCTGTTGGATGCGATTGCCAAACTTCCGTGTCATTGGTGAT
GCTCTTAAGGATCGTTTTGATGCAGCCATTCGTGTACAGGTCAATAATAATCTTAAAAAT
AACAATGAAAATCAAATTATGAGAAATAATAGAAGAAACAATAAAAATTTGGCAAATACA
AACAGTGAAACAAACTCAGTTCATGGACGTGGTCAAAATCAAAGAAAACAAAATC
>g5742.t2 Gene=g5742 Length=318
MDMLKLFYLLIMALCAYVNADAEKQSKQNRGRGSIWWGIAKAGEPNNISPVTPTHVYMDP
AIHATLRRKQRRLARENPGILAAIAKGANMAIAECQHQFRNRRWNCSTRNFLQRGKNLFG
KIVDRGCRETAFIYAITSAAVTHSIARACSEGSIESCTCDWSHQNEPPQASKSESVSDVR
MWEWGGCSDNIVFGYKLAREFVDTGERGRSLREKMNLHNNEAGRHVQSEMREECKCHGMS
GSCSVKTCWMRLPNFRVIGDALKDRFDAAIRVQVNNNLKNNNENQIMRNNRRNNKNLANT
NSETNSVHGRGQNQRKQN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g5742.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 281 | 318 | - |
| 2 | g5742.t2 | PANTHER | PTHR12027 | WNT RELATED | 14 | 296 | 2.2E-112 |
| 3 | g5742.t2 | PANTHER | PTHR12027:SF91 | PROTO-ONCOGENE WNT-1 | 14 | 296 | 2.2E-112 |
| 4 | g5742.t2 | PRINTS | PR01349 | Wnt protein signature | 128 | 142 | 9.3E-25 |
| 7 | g5742.t2 | PRINTS | PR01349 | Wnt protein signature | 147 | 160 | 9.3E-25 |
| 6 | g5742.t2 | PRINTS | PR01349 | Wnt protein signature | 182 | 194 | 9.3E-25 |
| 5 | g5742.t2 | PRINTS | PR01349 | Wnt protein signature | 235 | 249 | 9.3E-25 |
| 1 | g5742.t2 | Pfam | PF00110 | wnt family | 63 | 295 | 3.7E-85 |
| 10 | g5742.t2 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 11 | g5742.t2 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 5 | - |
| 12 | g5742.t2 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 6 | 16 | - |
| 13 | g5742.t2 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 17 | 20 | - |
| 9 | g5742.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 318 | - |
| 15 | g5742.t2 | ProSitePatterns | PS00246 | Wnt-1 family signature. | 234 | 243 | - |
| 16 | g5742.t2 | SMART | SM00097 | wnt1_3 | 62 | 316 | 2.0E-94 |
| 8 | g5742.t2 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
| 14 | g5742.t2 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5742/g5742.t2; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5742.t2.fa.iupred3.txt does not exist
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. There were no conditions that were differentially expressed