Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t7 isoform g7854.t7 26422968 26424291
chr_2 g7854 g7854.t7 exon g7854.t7.exon1 26422968 26423157
chr_2 g7854 g7854.t7 cds g7854.t7.CDS1 26422969 26423157
chr_2 g7854 g7854.t7 exon g7854.t7.exon2 26423215 26423375
chr_2 g7854 g7854.t7 cds g7854.t7.CDS2 26423215 26423375
chr_2 g7854 g7854.t7 exon g7854.t7.exon3 26423441 26423684
chr_2 g7854 g7854.t7 cds g7854.t7.CDS3 26423441 26423684
chr_2 g7854 g7854.t7 exon g7854.t7.exon4 26423750 26423935
chr_2 g7854 g7854.t7 cds g7854.t7.CDS4 26423750 26423935
chr_2 g7854 g7854.t7 exon g7854.t7.exon5 26424061 26424291
chr_2 g7854 g7854.t7 cds g7854.t7.CDS5 26424061 26424291
chr_2 g7854 g7854.t7 TSS g7854.t7 26424417 26424417
chr_2 g7854 g7854.t7 TTS g7854.t7 NA NA

Sequences

>g7854.t7 Gene=g7854 Length=1012
ATGTCGAATAATGTAAAGTTTAGTTTGTTAGTTTTATTTCTTAAAGTATTTTTTGTAATA
TCTCAACAATCGAGCGTAGTAATATCAACAGAGTCAAAAACTCGACAGAAGGATTACGAT
CGAATATCAAGTTATAATCAAAAATGCGAGCCAATACAAATTCCGCTTTGCCAAGATATA
CAATTTTATAATCAAACAATTTTTCCAAATCTCCTGAATCATGCACGACAGGACGAAGCA
GCGCTTGAAGTTCATCAATTTATTCCACTTATTAAAATAAATTGTTCTCCCGACCTGAAA
TTATTTTTATGCTCACTTTATGCTCCGATATGTACAATCTTGGATTATCCTATTCCGCCA
TGCAGAAAGTTATGTGAAAGTGCCAGAAATTGTGAAAAAATTATGAGAACATTTGACTTT
CAATGGCCCGAGAATCTCGAATGCTCGAAATTCCCTGAAGACGGTACAAAAGATATTTGC
ATATCACCCAACAACTCAGCACCGTCATCTTCTTCATCACCATCACAAGATTCACATCAA
TTCAGTACACAAATTACATCGCTTGGAAAAGTAGAGCGAAAAAATCAGCATGACTCGCGA
AACGCAACATCTTTTTCACAGCATAAATTTAGAGGATTTATTTGTCCAGTGCAATTGAAA
GCACCTGCCGCACTGGGATATGAGCTAAATATCGGTGGAAAAGTTGTAAAAGATTGTGGA
GCTCCATGCAGCTCTCTATTTTTTGATGACAAAGAAGTCACAATGCTTAGATATTGGATA
AGTTTTTGGGCAATTATATGTGTGGCTTGTTGCTTATTTACTATTCTAACATTTATTATC
GATTCATCGCGATTTCGATATCCAGAACGTCCTATCGTATTTATTGCGATATGCTATTTA
ATAGTTGCGACTGCTTATATTTCGGGATTGAGTGCTGGAAAAAATATTTCATGCCGTGAT
CCATTTGTGCATACAGTGAAGTTGGGACGCTTGCAAATGATTTCAACAATTA

>g7854.t7 Gene=g7854 Length=337
MSNNVKFSLLVLFLKVFFVISQQSSVVISTESKTRQKDYDRISSYNQKCEPIQIPLCQDI
QFYNQTIFPNLLNHARQDEAALEVHQFIPLIKINCSPDLKLFLCSLYAPICTILDYPIPP
CRKLCESARNCEKIMRTFDFQWPENLECSKFPEDGTKDICISPNNSAPSSSSSPSQDSHQ
FSTQITSLGKVERKNQHDSRNATSFSQHKFRGFICPVQLKAPAALGYELNIGGKVVKDCG
APCSSLFFDDKEVTMLRYWISFWAIICVACCLFTILTFIIDSSRFRYPERPIVFIAICYL
IVATAYISGLSAGKNISCRDPFVHTVKLGRLQMISTI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g7854.t7 Gene3D G3DSA:1.10.2000.10 - 41 167 4.8E-41
10 g7854.t7 Gene3D G3DSA:1.20.1070.10 - 224 334 4.4E-31
3 g7854.t7 PANTHER PTHR11309 FRIZZLED 25 322 8.4E-85
4 g7854.t7 PANTHER PTHR11309:SF31 FRIZZLED-7 25 322 8.4E-85
6 g7854.t7 PRINTS PR00489 Frizzled protein signature 259 281 5.1E-18
5 g7854.t7 PRINTS PR00489 Frizzled protein signature 287 309 5.1E-18
2 g7854.t7 Pfam PF01392 Fz domain 49 154 1.4E-29
1 g7854.t7 Pfam PF01534 Frizzled/Smoothened family membrane region 247 324 1.4E-25
15 g7854.t7 Phobius SIGNAL_PEPTIDE Signal peptide region 1 29 -
16 g7854.t7 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 8 -
17 g7854.t7 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 9 20 -
20 g7854.t7 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 21 29 -
13 g7854.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 30 257 -
19 g7854.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 258 280 -
12 g7854.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 281 291 -
18 g7854.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 292 312 -
14 g7854.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 313 337 -
26 g7854.t7 ProSiteProfiles PS50038 Frizzled (fz) domain profile. 44 163 27.265
24 g7854.t7 SMART SM00063 FRI_4 48 165 2.2E-62
25 g7854.t7 SMART SM01330 Frizzled_2 246 336 4.3E-4
7 g7854.t7 SUPERFAMILY SSF63501 Frizzled cysteine-rich domain 48 163 8.37E-39
9 g7854.t7 SignalP_EUK SignalP-noTM SignalP-noTM 1 21 -
8 g7854.t7 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 29 -
21 g7854.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 10 29 -
23 g7854.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 258 280 -
22 g7854.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 290 312 -

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:0005515 protein binding MF
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