General information for g3847.t54
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g3847 is located on chr_3: 28350080..28358891 (+ 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_3 | g3847 | g3847.t54 | isoform | g3847.t54 | 28350080 | 28351693 |
| chr_3 | g3847 | g3847.t54 | exon | g3847.t54.exon1 | 28350080 | 28350368 |
| chr_3 | g3847 | g3847.t54 | exon | g3847.t54.exon2 | 28350435 | 28350590 |
| chr_3 | g3847 | g3847.t54 | exon | g3847.t54.exon3 | 28350647 | 28351037 |
| chr_3 | g3847 | g3847.t54 | cds | g3847.t54.CDS1 | 28350657 | 28350971 |
| chr_3 | g3847 | g3847.t54 | exon | g3847.t54.exon4 | 28351104 | 28351486 |
| chr_3 | g3847 | g3847.t54 | exon | g3847.t54.exon5 | 28351546 | 28351693 |
| chr_3 | g3847 | g3847.t54 | TSS | g3847.t54 | NA | NA |
| chr_3 | g3847 | g3847.t54 | TTS | g3847.t54 | NA | NA |
Sequences
>g3847.t54 Gene=g3847 Length=1367
GAATTTAATAAATTTCAATCATATATATCAAAAAAAAATCATTCATGTGACTATTAATTT
TATTAATCAATTTACGGTGAAAGCAATTTTATGATTATTATATTAAATGTATGGAGATAC
TTAAATAATTCAAAAAAGTTAAGTTAAAATACACTTAAACCAAATCTGCTACATTCATAG
GCATCTCATCGATCTGCGTTGAATAGTATTGTTCAATATCTCTAAGAATCCTTATGTCGT
CTGATTTTACAAAATTAATGCCAACACCTTTGCGACCGAAACGACCTGATCTACCTGTGA
ATATACAATTCTCTGTTGTTTGGTAGATCATAATTGATAACGAGAGAAACTTGTTGAACA
TCAATACCTCTTGCCCAAACGTCAGTTGTGATTAAAACTCTTGTTTGTCCAGATCGGAAT
TCTTTCATAATCTCATCACGTTCCTTTTTTGTGGCATGTCACCATGCATAGAACTGACAG
TGAAATTTGCTTCACGCATTTTTTCAGTCAACCAATCGACTTTTCTCTTTGTATTACAAA
AAATGACTGCTTGTGTGATTGTCAGTGTATCGTATAAATCACACAGTGTATCAAACTTCC
ATTCTTCTCTTTCGACAGCAACAAAAAACTGTTTGATACCTTCAAGTGTTAATTCATCAC
GTTTTACAAGAATACGAATGGGATCCGTCATGAATTTGCTAGTCATTTCCAGAATTTCGT
GTGGTAATGTAGCAGAAATTAAACATACTTGTGTAGCTGGTGGCAAATAACGATATACAT
CATAAATTTGTTCTTTAAAACCTTTGTTTAACATTTCATCAGCTTCATCCAAAACCCATT
TTAATTGCACGAGTTCTCAGCACTCGACGTTTTATCATGTCAAAAACTCGACCTGGAGTT
CCACTTACAACATGTTGACCATAATCTAATTTGCGAATATCTTCTCCCAAATTTGTACCT
CCAATACAAGCATGGCATTGAACGTTCATAAAATCTCCAAGAGCGAGAATGACTTTTTGA
ATCTGTACGGCCAATTCGCGAGTAGGAGATAAGCAAAGAACTTGAGTTTCACGAAGAGCC
GTGTCTAATTTCTCTAAAATTGCGATTGAAAAAGTTGCGGTTTTACCAGTACCGGATTGA
GCTTGTGCTATTACATCGCGTCCCTTTACAATCGGTAAAATACTTCTCTGCTGAATGGCT
GATGGTTTCTCAAATCCTACATATATTCCTCTTAAGAGTTCTTCACGTAATTTCATCGAT
TGAAATGTTGGAACAACTTCAACATCTTCACTTGTCTCAAATTCAACATTTGATAAATCT
TCCGTCACTGATTTTTTCGAAGTTGATGCCATTTTTGTTGCTTCACA
>g3847.t54 Gene=g3847 Length=104
MSPCIELTVKFASRIFSVNQSTFLFVLQKMTACVIVSVSYKSHSVSNFHSSLSTATKNCL
IPSSVNSSRFTRIRMGSVMNLLVISRISCGNVAEIKHTCVAGGK
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. There were no conditions that were differentially expressed