General information for g13343.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein shifted.
Parent gene
- The parent gene g13343 is located on chr_1: 29384163..29385438 (+ 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 | g13343 | g13343.t1 | isoform | g13343.t1 | 29382964 | 29384163 |
| chr_1 | g13343 | g13343.t1 | exon | g13343.t1.exon1 | 29382964 | 29383381 |
| chr_1 | g13343 | g13343.t1 | cds | g13343.t1.CDS1 | 29382964 | 29383381 |
| chr_1 | g13343 | g13343.t1 | exon | g13343.t1.exon2 | 29383441 | 29383508 |
| chr_1 | g13343 | g13343.t1 | cds | g13343.t1.CDS2 | 29383441 | 29383508 |
| chr_1 | g13343 | g13343.t1 | exon | g13343.t1.exon3 | 29383568 | 29383646 |
| chr_1 | g13343 | g13343.t1 | cds | g13343.t1.CDS3 | 29383568 | 29383646 |
| chr_1 | g13343 | g13343.t1 | exon | g13343.t1.exon4 | 29383955 | 29384163 |
| chr_1 | g13343 | g13343.t1 | cds | g13343.t1.CDS4 | 29383955 | 29384163 |
| chr_1 | g13343 | g13343.t1 | TSS | g13343.t1 | NA | NA |
| chr_1 | g13343 | g13343.t1 | TTS | g13343.t1 | NA | NA |
Sequences
>g13343.t1 Gene=g13343 Length=774
ATGAGAACGATTATATTTTCGATAATTATTTTATTGAGATCGAATTTCACACAAGCAAGG
CATGACCAATTTTATTTTTCACACCATCAACATCATCATCCGCACTATTATCAAACAAAT
GAGCCGAATGATTTATCGCTTTGGATAAGTGAACAGCAGGTGAAAATGTTTAGTGGCTAC
TCTATGCGAATTTACGCAATCGATAATGGAAGAGTTAATCCACTTTTAAGAGATCCCGCT
TTTGACACACTTATGCCAATTATTCCACCAGAAATTATGTCTATGAATTTTACATGGACT
GCTGGAAAAAGAAAATATCGCTATCATTTTGACCATATGATGTCACTTGATGAAAAAGTA
TTGCTAGCACCAGTAATTTCAATAAGACCAAAAGGAAGAATCCCACCTGAACCAAAACAA
TTCAGTGTCATGCTTCCATGCTCAAATCTCACATCAGGAATAGCAAAATTTACACTTGGT
CTTCAAATAACTCGCGCAAAAGGAAAATTTCTACCTGGCACACCATTACGTTTTACATTG
CGCAAAGAATGCAATTTGAATAGAGGTGGACCAGATCCCGAATGTGATAAAAAATGTCTC
AATGGTGGTTCATGTACAAAAAATAAAATCTGTAAATGTGCTGAAGGCTATATTGGACAA
AATTGTGAACAAGCATTGTGTTTTCCACAATGTATGAATGGTGGTAATTGTTCAGCACCT
GCTATTTGCTCATGTCCAAAAGGCTATCAAGGGAGATATTGTGAAGGAGGTTAG
>g13343.t1 Gene=g13343 Length=257
MRTIIFSIIILLRSNFTQARHDQFYFSHHQHHHPHYYQTNEPNDLSLWISEQQVKMFSGY
SMRIYAIDNGRVNPLLRDPAFDTLMPIIPPEIMSMNFTWTAGKRKYRYHFDHMMSLDEKV
LLAPVISIRPKGRIPPEPKQFSVMLPCSNLTSGIAKFTLGLQITRAKGKFLPGTPLRFTL
RKECNLNRGGPDPECDKKCLNGGSCTKNKICKCAEGYIGQNCEQALCFPQCMNGGNCSAP
AICSCPKGYQGRYCEGG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g13343.t1 | CDD | cd00054 | EGF_CA | 194 | 223 | 0.00413934 |
| 8 | g13343.t1 | Gene3D | G3DSA:2.60.40.2170 | - | 41 | 187 | 1.1E-51 |
| 7 | g13343.t1 | Gene3D | G3DSA:2.10.25.10 | Laminin | 195 | 225 | 1.7E-8 |
| 6 | g13343.t1 | Gene3D | G3DSA:2.10.25.10 | Laminin | 227 | 256 | 2.1E-6 |
| 2 | g13343.t1 | PANTHER | PTHR14949:SF32 | WNT INHIBITORY FACTOR 1 | 39 | 256 | 1.6E-65 |
| 3 | g13343.t1 | PANTHER | PTHR14949 | EGF-LIKE-DOMAIN, MULTIPLE 7, 8 | 39 | 256 | 1.6E-65 |
| 1 | g13343.t1 | Pfam | PF02019 | WIF domain | 47 | 184 | 5.4E-34 |
| 10 | g13343.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 19 | - |
| 11 | g13343.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 12 | g13343.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 12 | - |
| 13 | g13343.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 13 | 19 | - |
| 9 | g13343.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 20 | 257 | - |
| 15 | g13343.t1 | ProSitePatterns | PS01186 | EGF-like domain signature 2. | 211 | 222 | - |
| 17 | g13343.t1 | ProSitePatterns | PS00022 | EGF-like domain signature 1. | 211 | 222 | - |
| 16 | g13343.t1 | ProSitePatterns | PS01186 | EGF-like domain signature 2. | 243 | 254 | - |
| 18 | g13343.t1 | ProSitePatterns | PS00022 | EGF-like domain signature 1. | 243 | 254 | - |
| 22 | g13343.t1 | ProSiteProfiles | PS50814 | WIF domain profile. | 47 | 184 | 35.32 |
| 24 | g13343.t1 | ProSiteProfiles | PS50026 | EGF-like domain profile. | 191 | 223 | 14.426 |
| 23 | g13343.t1 | ProSiteProfiles | PS50026 | EGF-like domain profile. | 224 | 255 | 10.544 |
| 19 | g13343.t1 | SMART | SM00469 | WIF_1 | 44 | 186 | 6.2E-13 |
| 21 | g13343.t1 | SMART | SM00181 | egf_5 | 194 | 223 | 3.3E-4 |
| 20 | g13343.t1 | SMART | SM00181 | egf_5 | 226 | 255 | 0.021 |
| 4 | g13343.t1 | SUPERFAMILY | SSF57196 | EGF/Laminin | 194 | 227 | 5.33E-5 |
| 5 | g13343.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 19 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K01691 (WNT inhibitory factor 1)
Pathway
- This transcript belongs to the following pathways
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.
