General information for g16596.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g16596 is located on chr_4: 10159449..10160183 (+ 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 | g16596 | g16596.t4 | isoform | g16596.t4 | 10159449 | 10160183 |
| chr_4 | g16596 | g16596.t4 | exon | g16596.t4.exon1 | 10159449 | 10159798 |
| chr_4 | g16596 | g16596.t4 | cds | g16596.t4.CDS1 | 10159650 | 10159798 |
| chr_4 | g16596 | g16596.t4 | exon | g16596.t4.exon2 | 10159904 | 10160183 |
| chr_4 | g16596 | g16596.t4 | cds | g16596.t4.CDS2 | 10159904 | 10160183 |
| chr_4 | g16596 | g16596.t4 | TTS | g16596.t4 | 10160277 | 10160277 |
| chr_4 | g16596 | g16596.t4 | TSS | g16596.t4 | NA | NA |
Sequences
>g16596.t4 Gene=g16596 Length=630
AAACTTGTGCTCAACTACAATCGTATTGAGTCTTTGAATCCTGAAATTTTTGAAAATTTG
TTATCATTAGAAGAACTTGATGCCACTGGACTTAGCTTAACTGAATTACCTGCAAATTTA
TTTAAAAACAATAAAAATCTTCAAAAGATCAATTTTAAATCAAATTATTTGAAAACACTT
CCGACTGAAATTTTCCAAAACATGTCAAAATTGACAGAAATTGATTTGACTTCAAACAGC
ATTACAAATTTGGATGCACAAGTTTTTGGAGGTTTGAGTGGATTGAAAGAATTAAAAATG
GACAACAACAAGCTTACTGAATTACCAGAGGAAATTTTTCATGATTTGAGCTCACTTGAA
AAAATTTCTATTAATAACAACAAATTGAAAACAAAACTCTCTTCCAAATTGTTTGAAAAT
AAACCAAAATTAGGTTTTGTTGGTTTAAGATCAAGTTGTGTTGATGAAACTTACGGTCAC
TGGCGGGGTGGTGAAATTTTAACAAACAATGAGAAGGAGATATTGATAAATGATATTGAT
AAAAAATGTCAATATATTTTAAAATTTTTATTAAAGAAAAATTTTTTGGATTCCTGTGAA
GAAAAAAAAATTTTCAATTTAAATTCATAA
>g16596.t4 Gene=g16596 Length=142
MSKLTEIDLTSNSITNLDAQVFGGLSGLKELKMDNNKLTELPEEIFHDLSSLEKISINNN
KLKTKLSSKLFENKPKLGFVGLRSSCVDETYGHWRGGEILTNNEKEILINDIDKKCQYIL
KFLLKKNFLDSCEEKKIFNLNS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g16596.t4 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 1 | 139 | 0.0e+00 |
| 2 | g16596.t4 | PANTHER | PTHR45617:SF69 | SI:DKEY-1J5.4 | 2 | 83 | 0.0e+00 |
| 3 | g16596.t4 | PANTHER | PTHR45617 | - | 2 | 83 | 0.0e+00 |
| 1 | g16596.t4 | Pfam | PF13855 | Leucine rich repeat | 3 | 62 | 0.0e+00 |
| 7 | g16596.t4 | SMART | SM00369 | LRR_typ_2 | 1 | 24 | 4.1e-01 |
| 6 | g16596.t4 | SMART | SM00369 | LRR_typ_2 | 25 | 48 | 8.6e-04 |
| 5 | g16596.t4 | SMART | SM00369 | LRR_typ_2 | 49 | 73 | 1.1e+01 |
| 4 | g16596.t4 | SUPERFAMILY | SSF52058 | L domain-like | 2 | 89 | 0.0e+00 |
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:0005515 | protein binding | MF |
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