General information for g12545.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Frizzled-2.
Parent gene
- The parent gene g12545 is located on chr_1: 24352698..24353939 (+ 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_1 | g12545 | g12545.t6 | TSS | g12545.t6 | 24351918 | 24351918 |
| chr_1 | g12545 | g12545.t6 | isoform | g12545.t6 | 24352698 | 24353939 |
| chr_1 | g12545 | g12545.t6 | exon | g12545.t6.exon1 | 24352698 | 24353481 |
| chr_1 | g12545 | g12545.t6 | cds | g12545.t6.CDS1 | 24353005 | 24353481 |
| chr_1 | g12545 | g12545.t6 | exon | g12545.t6.exon2 | 24353558 | 24353939 |
| chr_1 | g12545 | g12545.t6 | cds | g12545.t6.CDS2 | 24353558 | 24353563 |
| chr_1 | g12545 | g12545.t6 | TTS | g12545.t6 | 24354086 | 24354086 |
Sequences
>g12545.t6 Gene=g12545 Length=1166
CAATGAAGCAATAAGCAAAATTTCACATTTCTTCCATCTTGCTGCATGGCTCATTCCAAC
ATTACAAAGCATTTCAGTGCTCGTTCATCCTGCAGTTGATGGTGATCCTCTTGCTGGAAT
TTGCTATGTTGGAAATACATCAATTGAGCATTTAAGAAATTTTGTGCTTGCTCCATACTT
TGTATATCTCGTCATCGGCACAACATTCTTACTCGCTGGATTTGTTTCACTCTTCCGCAT
CAGATCAGTTATTAAACAGCAAGGTGGAATTGGTGCTGGTTCAAAAGCAGATAAACTTGA
AAAATTAATGATAAGAATTGGAATCTTTAGTGTTCTATATACAGTACCAGCGACAATTGT
TATTGCATGTCATCTTTATGAGTCAAACTTTTTCGATGACTGGATGACGACGCTCGTTTG
TCCTTGCGTACAACAAACAGATGAATGGCGACGACAGCCAATTTACGCAATTCTTATGCT
AAAATATTTCATGACTCTTGTATGTGGAATAACTTCTGGCATTTGGATATGGAGTGGAAA
AACTCTCGAGTCATGGTGTAAATTATGGCGAAGACTTTGCGGCTCAAAGCCTGATCATTC
GGGCGCTGGTCAAGTTTTAATCAAACCGCGACCACAACTACCTCAACCATATGTAGCGAC
AACAGTACAGGGATCAGCGGCATCAGCGTCATTATTGACAGCACCATATGCACAAACGAT
GGGAAGCATGGCATCAAGTCACCATCATTTACATCATCATGTGCTGAAACATCCGATGAG
TCATGTATGACCTCAAATTATGGAAGGCGGTCCAGGCACTGCAGTCGAAAATGGATCTCT
CGTGGACGCACGGGCTGTCTCCGTCGTGGTCTCAACTGCTAAAATGACTGCAGTCTCTCA
TCAACCAAGTGGTGGTCAAGCATTATCAGACTACGGACCTATATAGTTAACGGAAAATCC
TCAGTATGTAAAATATTACAAGTGCATACCGCCGGATGAATAAAAAATATAAAAATAAAT
TACCGCGAAAGTCAACACAATTAAAATATAAGAGAGGAGAAAATGAAGCACATATGCATG
CTCTCTTTTCTAGTCGATTTAATGCTTCGTTAAAGAAATGAAATAAACAGAAGCCAATGC
CATGAATCTTTTTTATAAGAACAAAA
>g12545.t6 Gene=g12545 Length=160
MIRIGIFSVLYTVPATIVIACHLYESNFFDDWMTTLVCPCVQQTDEWRRQPIYAILMLKY
FMTLVCGITSGIWIWSGKTLESWCKLWRRLCGSKPDHSGAGQVLIKPRPQLPQPYVATTV
QGSAASASLLTAPYAQTMGSMASSHHHLHHHVLKHPMSHV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g12545.t6 | Gene3D | G3DSA:1.20.1070.10 | - | 1 | 93 | 1.1E-27 |
| 2 | g12545.t6 | PANTHER | PTHR11309 | FRIZZLED | 1 | 101 | 8.4E-35 |
| 3 | g12545.t6 | PANTHER | PTHR11309:SF90 | FRIZZLED-8 | 1 | 101 | 8.4E-35 |
| 1 | g12545.t6 | Pfam | PF01534 | Frizzled/Smoothened family membrane region | 1 | 90 | 1.7E-28 |
| 11 | g12545.t6 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 12 | g12545.t6 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 13 | g12545.t6 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 15 | - |
| 15 | g12545.t6 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 20 | - |
| 10 | g12545.t6 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 51 | - |
| 14 | g12545.t6 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 52 | 75 | - |
| 9 | g12545.t6 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 76 | 160 | - |
| 8 | g12545.t6 | ProSiteProfiles | PS51257 | Prokaryotic membrane lipoprotein lipid attachment site profile. | 1 | 21 | 5.0 |
| 6 | g12545.t6 | SMART | SM01330 | Frizzled_2 | 1 | 93 | 0.0019 |
| 5 | g12545.t6 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 24 | - |
| 4 | g12545.t6 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 53 | 75 | - |
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: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.
