Gene loci information

Transcript annotation

  • This transcript has been annotated as Frizzled-2.

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_1 g12545 g12545.t5 isoform g12545.t5 24351912 24353563
chr_1 g12545 g12545.t5 exon g12545.t5.exon1 24351912 24351961
chr_1 g12545 g12545.t5 TSS g12545.t5 24351918 24351918
chr_1 g12545 g12545.t5 exon g12545.t5.exon2 24352328 24353563
chr_1 g12545 g12545.t5 cds g12545.t5.CDS1 24352411 24353562
chr_1 g12545 g12545.t5 TTS g12545.t5 24354086 24354086

Sequences

>g12545.t5 Gene=g12545 Length=1286
GAGTACAGCAAAAGTTGGCAGTGTAAGCAATTGTGGAATTCCATGCAAAGGCGCATTCTT
TACACAAGATGAGAAAGACTTTGCAAGCTTCTGGATAACTTTATGGAGTGGTTTTTGTGC
AGCGAGCACTTTTATGACACTTACAACTTTTTTAATTGATCCCGAGCGTTTCAAGTATCC
GGAAAGGCCAATTGTATTTCTATCAGCGTGCTACTTTATGGTGTCATTAGGATTCTTAAC
ACGATACTTTGTTGGCCATGAAAAAATTGCGTGCGATGGTCGCGCTATAAAATACTCATC
AACGGGTCAGAGCTCGTGCACAATTGTCTTTTTATTGATTTACTACTTTGGCATGGCATC
TTCAATTTGGTGGGTCATTTTGAGCTTCACTTGGTTCCTCTCGGCTGGTTTGAAATGGGG
CAATGAAGCAATAAGCAAAATTTCACATTTCTTCCATCTTGCTGCATGGCTCATTCCAAC
ATTACAAAGCATTTCAGTGCTCGTTCATCCTGCAGTTGATGGTGATCCTCTTGCTGGAAT
TTGCTATGTTGGAAATACATCAATTGAGCATTTAAGAAATTTTGTGCTTGCTCCATACTT
TGTATATCTCGTCATCGGCACAACATTCTTACTCGCTGGATTTGTTTCACTCTTCCGCAT
CAGATCAGTTATTAAACAGCAAGGTGGAATTGGTGCTGGTTCAAAAGCAGATAAACTTGA
AAAATTAATGATAAGAATTGGAATCTTTAGTGTTCTATATACAGTACCAGCGACAATTGT
TATTGCATGTCATCTTTATGAGTCAAACTTTTTCGATGACTGGATGACGACGCTCGTTTG
TCCTTGCGTACAACAAACAGATGAATGGCGACGACAGCCAATTTACGCAATTCTTATGCT
AAAATATTTCATGACTCTTGTATGTGGAATAACTTCTGGCATTTGGATATGGAGTGGAAA
AACTCTCGAGTCATGGTGTAAATTATGGCGAAGACTTTGCGGCTCAAAGCCTGATCATTC
GGGCGCTGGTCAAGTTTTAATCAAACCGCGACCACAACTACCTCAACCATATGTAGCGAC
AACAGTACAGGGATCAGCGGCATCAGCGTCATTATTGACAGCACCATATGCACAAACGAT
GGGAAGCATGGCATCAAGTCACCATCATTTACATCATCATGTGCTGAAACATCCGATGAG
TCATGTAAGTTTTCTTCTTTTTTTATTCTATTATTTTAAGAAAAATAAACTTAACTTTTT
TTGTTCTCATATAAAAATAGGTATGA

>g12545.t5 Gene=g12545 Length=384
MTLTTFLIDPERFKYPERPIVFLSACYFMVSLGFLTRYFVGHEKIACDGRAIKYSSTGQS
SCTIVFLLIYYFGMASSIWWVILSFTWFLSAGLKWGNEAISKISHFFHLAAWLIPTLQSI
SVLVHPAVDGDPLAGICYVGNTSIEHLRNFVLAPYFVYLVIGTTFLLAGFVSLFRIRSVI
KQQGGIGAGSKADKLEKLMIRIGIFSVLYTVPATIVIACHLYESNFFDDWMTTLVCPCVQ
QTDEWRRQPIYAILMLKYFMTLVCGITSGIWIWSGKTLESWCKLWRRLCGSKPDHSGAGQ
VLIKPRPQLPQPYVATTVQGSAASASLLTAPYAQTMGSMASSHHHLHHHVLKHPMSHVSF
LLFLFYYFKKNKLNFFCSHIKIGM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
26 g12545.t5 CDD cd15035 7tmF_FZD5_FZD8-like 1 286 3.31893E-171
10 g12545.t5 Gene3D G3DSA:1.20.1070.10 - 1 291 1.6E-113
2 g12545.t5 PANTHER PTHR11309:SF126 FRIZZLED-2 1 311 2.6E-147
3 g12545.t5 PANTHER PTHR11309 FRIZZLED 1 311 2.6E-147
8 g12545.t5 PRINTS PR00489 Frizzled protein signature 15 37 1.4E-71
9 g12545.t5 PRINTS PR00489 Frizzled protein signature 64 88 1.4E-71
5 g12545.t5 PRINTS PR00489 Frizzled protein signature 107 130 1.4E-71
7 g12545.t5 PRINTS PR00489 Frizzled protein signature 152 174 1.4E-71
4 g12545.t5 PRINTS PR00489 Frizzled protein signature 198 219 1.4E-71
6 g12545.t5 PRINTS PR00489 Frizzled protein signature 253 273 1.4E-71
1 g12545.t5 Pfam PF01534 Frizzled/Smoothened family membrane region 1 287 8.9E-122
16 g12545.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 19 -
24 g12545.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 20 40 -
11 g12545.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 41 51 -
21 g12545.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 52 72 -
18 g12545.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 73 77 -
23 g12545.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 78 97 -
13 g12545.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 98 108 -
22 g12545.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 109 128 -
15 g12545.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 129 154 -
25 g12545.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 155 177 -
12 g12545.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 178 197 -
20 g12545.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 198 223 -
17 g12545.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 224 249 -
19 g12545.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 250 273 -
14 g12545.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 274 384 -
33 g12545.t5 ProSiteProfiles PS50261 G-protein coupled receptors family 2 profile 2. 1 280 34.349
32 g12545.t5 SMART SM01330 Frizzled_2 1 291 4.0E-168
27 g12545.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 20 41 -
31 g12545.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 61 83 -
30 g12545.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 152 174 -
28 g12545.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 200 222 -
29 g12545.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 251 273 -

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: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