General information for g16090.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g16090 is located on chr_4: 8112011..8117976 (- 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 | g16090 | g16090.t1 | isoform | g16090.t1 | 8111632 | 8117976 |
| chr_4 | g16090 | g16090.t1 | exon | g16090.t1.exon1 | 8111632 | 8111649 |
| chr_4 | g16090 | g16090.t1 | cds | g16090.t1.CDS1 | 8111632 | 8111649 |
| chr_4 | g16090 | g16090.t1 | exon | g16090.t1.exon2 | 8111709 | 8111820 |
| chr_4 | g16090 | g16090.t1 | cds | g16090.t1.CDS2 | 8111709 | 8111820 |
| chr_4 | g16090 | g16090.t1 | exon | g16090.t1.exon3 | 8112011 | 8112401 |
| chr_4 | g16090 | g16090.t1 | cds | g16090.t1.CDS3 | 8112011 | 8112401 |
| chr_4 | g16090 | g16090.t1 | exon | g16090.t1.exon4 | 8117889 | 8117976 |
| chr_4 | g16090 | g16090.t1 | cds | g16090.t1.CDS4 | 8117889 | 8117976 |
| chr_4 | g16090 | g16090.t1 | TSS | g16090.t1 | NA | NA |
| chr_4 | g16090 | g16090.t1 | TTS | g16090.t1 | NA | NA |
Sequences
>g16090.t1 Gene=g16090 Length=609
ATGGAAAACGGCACAGTATCACGTAAAAAAAGTAAGAAAAAGAAGATAAGAAGTAATAGT
CCACAAACATCTAATGGATCTGAAAAAATTCTGATCAAACTTTCCAAAATTCTTTGTTTG
AAATGCGAGAAAGATTTAAAAAATGCAATTGAATATCGTGAAAAACTTATAAATATTCAA
AATCAACTTGAAAGTCAACTTCCAGGAGATAAGTTTGAAAATGTTGTTATAAAATGTGAA
GTTAAAGATGAAAGTTATGATGATCCAGCAAATGATTATAATTTTAGTCTATTTGACTCT
ACACAATTGCTTGATCAAATGGAAGATGAAATTTTTACTCCTGAACCTTTCAAAAAAGTT
ATAGAATCAAAAGAAGAAAAGAGAGCAAGGAAAGATAGAGAAAAAAAGATCCAAGATATA
TGTCCAGAATGTGGCGTTATTTATGCTAATAAGCAGTCTTTGAAGAAACATATTGCAAAT
GTTCACATAAAATTAAAGAAGTTTCAATGCGATAACTGCAATTATTCAACAACTACAAAA
CATTCATTGAAAAGTCACATGAAAGTTCACATTGACAAAGCAGAAAAGAAGAGTTCACAA
TTGCGATAA
>g16090.t1 Gene=g16090 Length=202
MENGTVSRKKSKKKKIRSNSPQTSNGSEKILIKLSKILCLKCEKDLKNAIEYREKLINIQ
NQLESQLPGDKFENVVIKCEVKDESYDDPANDYNFSLFDSTQLLDQMEDEIFTPEPFKKV
IESKEEKRARKDREKKIQDICPECGVIYANKQSLKKHIANVHIKLKKFQCDNCNYSTTTK
HSLKSHMKVHIDKAEKKSSQLR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g16090.t1 | Gene3D | G3DSA:3.30.160.60 | Classic Zinc Finger | 110 | 199 | 6.9E-13 |
| 7 | g16090.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 25 | - |
| 2 | g16090.t1 | Pfam | PF00096 | Zinc finger, C2H2 type | 141 | 162 | 0.0072 |
| 1 | g16090.t1 | Pfam | PF13909 | C2H2-type zinc-finger domain | 168 | 190 | 1.7E-6 |
| 6 | g16090.t1 | ProSitePatterns | PS00028 | Zinc finger C2H2 type domain signature. | 141 | 162 | - |
| 10 | g16090.t1 | ProSiteProfiles | PS50157 | Zinc finger C2H2 type domain profile. | 139 | 167 | 9.078 |
| 9 | g16090.t1 | ProSiteProfiles | PS50157 | Zinc finger C2H2 type domain profile. | 168 | 195 | 10.492 |
| 4 | g16090.t1 | SMART | SM00355 | c2h2final6 | 139 | 162 | 2.5 |
| 5 | g16090.t1 | SMART | SM00355 | c2h2final6 | 168 | 190 | 3.9E-4 |
| 3 | g16090.t1 | SUPERFAMILY | SSF57667 | beta-beta-alpha zinc fingers | 140 | 190 | 4.71E-10 |
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