General information for g15018.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g15018 is located on chr_4: 3538406..3539888 (+ 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 | g15018 | g15018.t2 | TSS | g15018.t2 | 3538314 | 3538314 |
| chr_4 | g15018 | g15018.t2 | isoform | g15018.t2 | 3538406 | 3539103 |
| chr_4 | g15018 | g15018.t2 | exon | g15018.t2.exon1 | 3538406 | 3538510 |
| chr_4 | g15018 | g15018.t2 | cds | g15018.t2.CDS1 | 3538406 | 3538510 |
| chr_4 | g15018 | g15018.t2 | exon | g15018.t2.exon2 | 3538569 | 3539103 |
| chr_4 | g15018 | g15018.t2 | cds | g15018.t2.CDS2 | 3538569 | 3539102 |
| chr_4 | g15018 | g15018.t2 | TTS | g15018.t2 | 3539986 | 3539986 |
Sequences
>g15018.t2 Gene=g15018 Length=640
ATGTCAGACAATGAAAATTGTCGATTGTGTTTTGAAGAATTTAATGATCTCATTGCAATA
AATGAAGAAATTCGGGAAATTTTTTATACATTGACAAGTGTTCATTTAATAAAATCTGAC
ATTCATTCAAACTCAATCTGTTCAACTTGCTCAGAAAAACTAAAATCAACTCGCCAATAC
ATAAATTCCTTAGCAGAAAATGAACTTCAATTAATTTCACAATCACAAAAGAATTCACCT
CAAAATGATCCAATGAGAGTTGATCAAGTAATGTTAATTGAAAGTGATTCAATGTCATTG
ATTCCAGAAGTTAAAATTGAAGATGAACATGACAATTTAGATGAAGAAATTTGGCAAGAA
GAAATCAAAAGTCATCGAGAAAAATCTATAAAAAAATCGAAACCAAAAATTAAAAAACGA
AAATTGGACAAAATTGATGCTGAAATTAATGCAATGCCAATGACTGCTGATGGAAAAGTT
ACTTGTACATATTGTCAGAAATCGATATTAAAAGTTTATTACAGACAACATGTTGAGCGA
CTTCATTTGGGTCTTCATAATTATCTTTGTGATTTATGTTCCAAAAAATTTTATCGAAAA
TCTTCTATACTTTGTCATATGCATATTCATCTTAATATTA
>g15018.t2 Gene=g15018 Length=213
MSDNENCRLCFEEFNDLIAINEEIREIFYTLTSVHLIKSDIHSNSICSTCSEKLKSTRQY
INSLAENELQLISQSQKNSPQNDPMRVDQVMLIESDSMSLIPEVKIEDEHDNLDEEIWQE
EIKSHREKSIKKSKPKIKKRKLDKIDAEINAMPMTADGKVTCTYCQKSILKVYYRQHVER
LHLGLHNYLCDLCSKKFYRKSSILCHMHIHLNI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g15018.t2 | Gene3D | G3DSA:3.30.160.60 | Classic Zinc Finger | 115 | 213 | 8.8E-8 |
| 4 | g15018.t2 | ProSitePatterns | PS00028 | Zinc finger C2H2 type domain signature. | 190 | 210 | - |
| 6 | g15018.t2 | ProSiteProfiles | PS50157 | Zinc finger C2H2 type domain profile. | 188 | 213 | 10.699 |
| 3 | g15018.t2 | SMART | SM00868 | zf_AD_2 | 6 | 74 | 0.0018 |
| 1 | g15018.t2 | SUPERFAMILY | SSF57716 | Glucocorticoid receptor-like (DNA-binding domain) | 6 | 71 | 4.28E-7 |
| 2 | g15018.t2 | SUPERFAMILY | SSF57667 | beta-beta-alpha zinc fingers | 158 | 211 | 7.6E-9 |
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:0005634 | nucleus | CC |
| GO:0008270 | zinc ion 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