Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Frizzled.

Parent gene

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 g7854 g7854.t6 TTS g7854.t6 26421757 26421757
chr_2 g7854 g7854.t6 isoform g7854.t6 26422338 26422901
chr_2 g7854 g7854.t6 exon g7854.t6.exon1 26422338 26422566
chr_2 g7854 g7854.t6 cds g7854.t6.CDS1 26422340 26422566
chr_2 g7854 g7854.t6 exon g7854.t6.exon2 26422631 26422716
chr_2 g7854 g7854.t6 cds g7854.t6.CDS2 26422631 26422716
chr_2 g7854 g7854.t6 exon g7854.t6.exon3 26422779 26422901
chr_2 g7854 g7854.t6 cds g7854.t6.CDS3 26422779 26422861
chr_2 g7854 g7854.t6 TSS g7854.t6 26423454 26423454

Sequences

>g7854.t6 Gene=g7854 Length=438
GGGTCATCAAAGCAGTTTGTCATGTACAGTTCTGTTTTTAATGATGTATTTCTGTCTAAT
GGCTTCCTTCACTTGGTGGGTGTTTTTCGCATTATCTTGGCTACTTGCGTCAGGCTTTAA
ATGGGGTCATGAAGCAATTGAATCGAGAGCACATCTTTTTCATCTTTGTGGATGGGCTTT
ACCTGGAATTCAAACAATTTTTGTGCTTGCATTAGGGAAAGTAGAAGGTGACATTTTGTC
AGGTGTTTGCTTCGTTGGAATGTTATCACGTCATTCAATTGCCATATTTTTGCTGATTCC
ATTGACAATCTATCTAGTGATTGGAACACTCTTTTTCTCCGTTGGCTTCGTTGCACTTCT
CAAAATCCGAACCATGATGAGAAATAAAAATGATGGAACAAGGACTGATAAATTAGAAAA
ATTGATGTATCGGATTGT

>g7854.t6 Gene=g7854 Length=132
MMYFCLMASFTWWVFFALSWLLASGFKWGHEAIESRAHLFHLCGWALPGIQTIFVLALGK
VEGDILSGVCFVGMLSRHSIAIFLLIPLTIYLVIGTLFFSVGFVALLKIRTMMRNKNDGT
RTDKLEKLMYRI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g7854.t6 Gene3D G3DSA:1.20.1070.10 - 1 132 3.8E-48
2 g7854.t6 PANTHER PTHR11309 FRIZZLED 2 132 3.2E-45
3 g7854.t6 PANTHER PTHR11309:SF31 FRIZZLED-7 2 132 3.2E-45
6 g7854.t6 PRINTS PR00489 Frizzled protein signature 40 63 1.7E-18
4 g7854.t6 PRINTS PR00489 Frizzled protein signature 85 107 1.7E-18
5 g7854.t6 PRINTS PR00489 Frizzled protein signature 128 132 1.7E-18
1 g7854.t6 Pfam PF01534 Frizzled/Smoothened family membrane region 1 132 4.8E-49
13 g7854.t6 Phobius SIGNAL_PEPTIDE Signal peptide region 1 23 -
14 g7854.t6 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
15 g7854.t6 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 18 -
19 g7854.t6 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 19 23 -
11 g7854.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 24 38 -
18 g7854.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 39 58 -
10 g7854.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 59 64 -
17 g7854.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 65 84 -
12 g7854.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 85 89 -
16 g7854.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 90 107 -
9 g7854.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 108 132 -
24 g7854.t6 ProSiteProfiles PS50261 G-protein coupled receptors family 2 profile 2. 1 132 23.669
23 g7854.t6 SMART SM01330 Frizzled_2 1 131 1.5E-11
7 g7854.t6 SignalP_EUK SignalP-TM SignalP-TM 1 25 -
21 g7854.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 4 26 -
22 g7854.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 39 58 -
20 g7854.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 85 107 -

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:0016020 membrane CC
GO:0042813 Wnt-activated receptor activity MF
GO:0016055 Wnt signaling pathway BP
GO:0016021 integral component of membrane CC
GO:0004888 transmembrane signaling receptor activity MF
GO:0007166 cell surface receptor signaling pathway BP

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.

Raw TPM values