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.t2 TTS g7854.t2 26421757 26421757
chr_2 g7854 g7854.t2 isoform g7854.t2 26421920 26422716
chr_2 g7854 g7854.t2 exon g7854.t2.exon1 26421920 26422141
chr_2 g7854 g7854.t2 cds g7854.t2.CDS1 26421920 26422141
chr_2 g7854 g7854.t2 exon g7854.t2.exon2 26422193 26422274
chr_2 g7854 g7854.t2 cds g7854.t2.CDS2 26422193 26422274
chr_2 g7854 g7854.t2 exon g7854.t2.exon3 26422329 26422566
chr_2 g7854 g7854.t2 cds g7854.t2.CDS3 26422329 26422516
chr_2 g7854 g7854.t2 exon g7854.t2.exon4 26422631 26422716
chr_2 g7854 g7854.t2 TSS g7854.t2 26422718 26422718

Sequences

>g7854.t2 Gene=g7854 Length=628
GGGTCATGAAGCAATTGAATCGAGAGCACATCTTTTTCATCTTTGTGGATGGGCTTTACC
TGGAATTCAAACAATTTTTGTGCTTGCATTAGGGAAAGTAGAAGGTGACATTTTGTCAGG
TGTTTGCTTCGTTGGAATGTTATCACGTCATTCAATTGCCATATTTTTGCTGATTCCATT
GACAATCTATCTAGTGATTGGAACACTCTTTTTCTCCGTTGGCTTCGTTGCACTTCTCAA
AATCCGAACCATGATGAGAAATAAAAATGATGGAACAAGGACTGATAAATTAGAAAAATT
GATGTATCGGATTGTCTTTTTCAGTATATTGTTTGTCATTCCATCATTCATTTATATTGG
ATGTTTGTTCTATGAGTGGATATATTTTGATGAATGGACTTTACAGTGGAATCGAATGAC
ATGTAAGAAATTTTCGATACCATGTCCACCGATGAGCTTAGAAGATGAGAACCGGCCAAT
ATTTAGTATTTTTATGCTTAAATATCTTTGCTCAATGCTAGTTGGAATAACTTCAGGCAT
CACATGGTTGTGCTCGAGTAAAACTTTTGCCAGCTGGAAGACGTTTTTCAATAGAATGAA
GGGTCAAAAAACAAGAAATTATGTATAA

>g7854.t2 Gene=g7854 Length=163
MLSRHSIAIFLLIPLTIYLVIGTLFFSVGFVALLKIRTMMRNKNDGTRTDKLEKLMYRIV
FFSILFVIPSFIYIGCLFYEWIYFDEWTLQWNRMTCKKFSIPCPPMSLEDENRPIFSIFM
LKYLCSMLVGITSGITWLCSSKTFASWKTFFNRMKGQKTRNYV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g7854.t2 Gene3D G3DSA:1.20.1070.10 - 1 157 8.6E-43
2 g7854.t2 PANTHER PTHR11309 FRIZZLED 6 155 5.3E-41
3 g7854.t2 PANTHER PTHR11309:SF31 FRIZZLED-7 6 155 5.3E-41
6 g7854.t2 PRINTS PR00489 Frizzled protein signature 12 34 1.1E-20
5 g7854.t2 PRINTS PR00489 Frizzled protein signature 55 76 1.1E-20
4 g7854.t2 PRINTS PR00489 Frizzled protein signature 118 138 1.1E-20
1 g7854.t2 Pfam PF01534 Frizzled/Smoothened family membrane region 4 154 1.2E-42
15 g7854.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
18 g7854.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 34 -
13 g7854.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 35 54 -
16 g7854.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 55 84 -
14 g7854.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 85 114 -
17 g7854.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 115 139 -
12 g7854.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 140 163 -
10 g7854.t2 SMART SM01330 Frizzled_2 1 157 3.6E-10
9 g7854.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 10 32 -
8 g7854.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 60 82 -
7 g7854.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 116 138 -

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: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