General information for g11566.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Interference hedgehog.
Parent gene
- The parent gene g11566 is located on chr_1: 17171551..17174532 (+ 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 | g11566 | g11566.t4 | isoform | g11566.t4 | 17166782 | 17171674 |
| chr_1 | g11566 | g11566.t4 | exon | g11566.t4.exon1 | 17166782 | 17167565 |
| chr_1 | g11566 | g11566.t4 | exon | g11566.t4.exon2 | 17170917 | 17171211 |
| chr_1 | g11566 | g11566.t4 | cds | g11566.t4.CDS1 | 17171056 | 17171211 |
| chr_1 | g11566 | g11566.t4 | exon | g11566.t4.exon3 | 17171283 | 17171551 |
| chr_1 | g11566 | g11566.t4 | cds | g11566.t4.CDS2 | 17171283 | 17171551 |
| chr_1 | g11566 | g11566.t4 | exon | g11566.t4.exon4 | 17171614 | 17171674 |
| chr_1 | g11566 | g11566.t4 | cds | g11566.t4.CDS3 | 17171614 | 17171674 |
| chr_1 | g11566 | g11566.t4 | TSS | g11566.t4 | NA | NA |
| chr_1 | g11566 | g11566.t4 | TTS | g11566.t4 | NA | NA |
Sequences
>g11566.t4 Gene=g11566 Length=1409
TGATATAAATTTTCAAACTTGTCTCCGAAGTATGGTGAAGTTGTGTACCCATTGTGCATG
CACTTGTTTGTGTATTGGTGAGAGCTCTACTCACTTGCAAAACTCTACAATAATAAGTGA
TGGTATGTGATCGTTTCTCTTCTTCATACACTTTAGTTTCACATTGTCGCTCACTGTGTT
TAGATGTCTTACAATAAGCATCACGGATTTAATTTTTTAAAAGAGCTCTTTGCCACTAGG
CAGTAAAATCATAGCAAAAATATTGAATTTATATAGTAAATTTGGTTATACAAGTGCTAT
ATATTATAACAAATGAAAATATAAATGAAAATTGATTGAAAATCATTATTCAATTAATAG
TTTTTTAATTAAAATTTTTTTCAACAAACACAAATATCGTGAGATGTGAGAAGATGTGTG
CAAGATTTTAAGAGTAAAAGATGAAAAATGAAAGAATTTCTTAGCCAGTATTGGTACATG
CGGTGAATGTGTGTAGGTGTTTTTTGTGAATTGTGATCAAAAGGAAAAGAAAAAAATCAA
AGAGAGTGAGAGAAAAAAGTACACAGCATAAAAAAATGATTGAAATACTTGAATGATCAT
CATTATGGTTCTTGATGAGACATACTCAATGAAAAAACGAAAATAAAAATAAGAAGAAGT
AAACGTGTTTTTAAAAAAGAGAATTGGCACAACTAAATGCAGTGAATAATTTGCATTCGG
AGAAAAATCAAAAAAAAAAAAAACAAGCGAAGGCAGAAGTTGCAGAAGAAGAGAGAAAAA
GAGAACTTATTATCATGTACTTTACAATGCAACATATTTATTTCAACCAAAAGTCATTTA
TGCTATTAATGCTGATATATTATTTAATATTATCGCAATGCCACGCATATAAACATGATT
CAGAGACAAGCTTAGGAACATATATGACTGTTGCACCTGAATCAACGGACGCACCAGCGG
GAGATGAGGTTCAACTACAATGTGAACTGAATCTTCCACCTGAGAAAGTTGAATTCCACT
TTCGACCTCAAAATAGCACCATAAATGACCGTGATAGAATCATTGATATACAAAAAATGA
CATCCTACAATATTACAACAAAAGATAGACTTTCAAAACTCCATGTATATGTTAATCAGA
AGACTGTGGGTGATTATCGATGTGTTGCGTGGTTTGGCGCCTCCGCACATGCATCAACTT
CTGCAAAACTAAGATTAGCTTCAATTTCATTAGAAGACAGAGACACACGAAAGCCATTAA
TTTCACTAAAAATTGCACCGCGCAACAGCATCATTTTACGTTGTGGCAATGTAACTTCCT
CTCCCGATCCTGTTTGGAGTTATTATAAAGATGATATTCTCTTGCCAACTTCCAATCAGG
TGCAGAGTAAATATGGTGGTTATATTCTT
>g11566.t4 Gene=g11566 Length=162
MTVAPESTDAPAGDEVQLQCELNLPPEKVEFHFRPQNSTINDRDRIIDIQKMTSYNITTK
DRLSKLHVYVNQKTVGDYRCVAWFGASAHASTSAKLRLASISLEDRDTRKPLISLKIAPR
NSIILRCGNVTSSPDPVWSYYKDDILLPTSNQVQSKYGGYIL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g11566.t4 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 1 | 99 | 4.0e-07 |
| 2 | g11566.t4 | PANTHER | PTHR44170:SF23 | BROTHER OF IHOG, ISOFORM G-RELATED | 4 | 146 | 0.0e+00 |
| 3 | g11566.t4 | PANTHER | PTHR44170 | PROTEIN SIDEKICK | 4 | 146 | 0.0e+00 |
| 1 | g11566.t4 | Pfam | PF00047 | Immunoglobulin domain | 4 | 91 | 4.5e-05 |
| 4 | g11566.t4 | SUPERFAMILY | SSF48726 | Immunoglobulin | 2 | 97 | 6.2e-06 |
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 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.
