General information for g17518.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g17518 is located on chr_4: 13770769..13773465 (- 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_4 | g17518 | g17518.t3 | TTS | g17518.t3 | 13770594 | 13770594 |
| chr_4 | g17518 | g17518.t3 | isoform | g17518.t3 | 13770769 | 13772245 |
| chr_4 | g17518 | g17518.t3 | exon | g17518.t3.exon1 | 13770769 | 13771033 |
| chr_4 | g17518 | g17518.t3 | cds | g17518.t3.CDS1 | 13770769 | 13771033 |
| chr_4 | g17518 | g17518.t3 | exon | g17518.t3.exon2 | 13771093 | 13771344 |
| chr_4 | g17518 | g17518.t3 | cds | g17518.t3.CDS2 | 13771093 | 13771208 |
| chr_4 | g17518 | g17518.t3 | exon | g17518.t3.exon3 | 13771406 | 13771588 |
| chr_4 | g17518 | g17518.t3 | exon | g17518.t3.exon4 | 13771645 | 13771827 |
| chr_4 | g17518 | g17518.t3 | exon | g17518.t3.exon5 | 13771879 | 13772127 |
| chr_4 | g17518 | g17518.t3 | exon | g17518.t3.exon6 | 13772185 | 13772245 |
| chr_4 | g17518 | g17518.t3 | TSS | g17518.t3 | NA | NA |
Sequences
>g17518.t3 Gene=g17518 Length=1193
AGAATTGGTCTGATGAGAAGAAATGCAGTAAGGTTGAACAATGTGATGCAAAAACTAAAG
TATGGGATGAAGTTTTATGTAAATGCGTTTGTTGGTCTGATGGTTATAAATGTACATCTG
CACAGACATGGAATAATGAAACTTGTCAGTGCGAATGTCCGGGCATTACTTGTCCTGCAA
CAAAAGTTCTTGACAATAAATGCAGATGTTACTGTAAAGAAGATTGCAAAGATAAGAACT
TGTTTGTACAAGATAAAAATACTTGTGGATGTTCTTGCAGAAAAGTTCAAAAATGTGCGT
TTAATGAAGTTTTCGATAATTTAGATTGCTCATGTAAATGCAATCTTACATGTCCAGCAA
ATCAACATTTAGATAAAAATGAGTGTCGTTGTCGCTGCAATTCTGAATGTAGAGATAAAA
ATATTTTCATCCAAGATCCAAAAACGTGTGCTTGTAACTGCAGAGAGGTTAAAAGATGTT
TACCAAATGAACATTTTGATGAATCAGAATGTCGATGCAAATGCAATCTTGTTTGTCCAC
CTAATCAATATCTAGATCGAGATTCTTGTGAATGTAAATGCAAAGAAAATTGCTTAAGAC
CACATTTGCATAATCAAGATCCTAACACATGTTGTTGTACTTGTAAAGATGTTAAAACTT
GCAGAGCAGTTGAATACTTTGATAACAAAACTTGCAACTGTCAATGTAAACTTACACCGT
TAGACTGTACAGCTAATCAGATTTTTGATCATCGGACTTGTCAATGTATTTGTAATCCAA
ATATTGATTGTCCATGCAAAAAACATGCAGTAATGCCATCATGCGACTGTCAATGTGAAC
AAGGTTGTCCATTTTCTGCTATGGTTCAAAATAATGAAACATGTGATTGTAGATGTCCAA
ATGCTACCGCTTGCAATGCTAGACAAATACTTGATGACAACTGCAACTGTGTCTGTGCTA
TTAAAGGAGTTTGTTCAGGTAAACAGCAATGGAATCCTGACTCATGTAGCTGTAGTTGCA
ATACAACTTGCGATAATCCTAAAATTCAGGATTCAAATTGCAATTGTGTTTGCGACAAGA
GAGAAAAAGAAAAATGCTTGCATGGCGTAATTTTCAACGTCTGGCATAAAAATAATTGCT
CTTGCTCTTGGTCCTGGGGATTGTTGGGCACATTACTTCCATTTTTGAATTAA
>g17518.t3 Gene=g17518 Length=126
MPSCDCQCEQGCPFSAMVQNNETCDCRCPNATACNARQILDDNCNCVCAIKGVCSGKQQW
NPDSCSCSCNTTCDNPKIQDSNCNCVCDKREKEKCLHGVIFNVWHKNNCSCSWSWGLLGT
LLPFLN
Protein features from InterProScan
No InterPro annotations for this transcript.
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.
