General information for g16093.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g16093 is located on chr_4: 8128684..8130548 (- 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 | g16093 | g16093.t3 | TTS | g16093.t3 | 8127058 | 8127058 |
| chr_4 | g16093 | g16093.t3 | isoform | g16093.t3 | 8127748 | 8129046 |
| chr_4 | g16093 | g16093.t3 | exon | g16093.t3.exon1 | 8127748 | 8127750 |
| chr_4 | g16093 | g16093.t3 | cds | g16093.t3.CDS1 | 8127750 | 8127750 |
| chr_4 | g16093 | g16093.t3 | exon | g16093.t3.exon2 | 8127929 | 8127982 |
| chr_4 | g16093 | g16093.t3 | cds | g16093.t3.CDS2 | 8127929 | 8127982 |
| chr_4 | g16093 | g16093.t3 | exon | g16093.t3.exon3 | 8128042 | 8128152 |
| chr_4 | g16093 | g16093.t3 | cds | g16093.t3.CDS3 | 8128042 | 8128152 |
| chr_4 | g16093 | g16093.t3 | exon | g16093.t3.exon4 | 8128343 | 8129046 |
| chr_4 | g16093 | g16093.t3 | cds | g16093.t3.CDS4 | 8128343 | 8129046 |
| chr_4 | g16093 | g16093.t3 | TSS | g16093.t3 | 8129292 | 8129292 |
Sequences
>g16093.t3 Gene=g16093 Length=872
ATGGATATTTTTGACTCCAGTGACATTTTAGAACATCAAACAGTTCTAAACAATGAATCT
CAAGAAGTCACAATAAAATCTGAAGAACCAGTCAATAAATCTGAAAAAAATTCACCAAAA
AAGTCACAAAAAAGATCAAAAAGACAAAAACTTGAAAATCCAGCAGAAGCATCAAAAAAA
TCTGATGAACAAAATCTTCAATGTCGACTTTGTCTCGCAACTATCAACACAAATAAAAGA
AATTCATTCGTAAAACTGACGAAGGATATTGAAAGAAAATTCAACGATGTGACACAAAAA
GTTCTTCACAATTCTGACCAGCTTTCCAAAATTCTTTGCTCAAAATGTGAGAAAGATTTA
AAAAATGCAATTGAATATCGTGAAAAACTTATAAATATTCAAAATCAACTTGAAAGTCAA
CTTCCAGGAGATAAGTTTGAAAATGTTGTTATAAAATGTGAAGTTAAAGATGAAAGTTAT
GATGATCCAGCAAATGATTATAATTTTAGTCTATTTGACTCTACACAATTGCTTGATCAA
ATGGAAGATGAAATTTTTACTCCTGAACCTTTCAAAAAAGTTATAGAATCAAAAGAAGAA
AAGAGAGCAAGGAAAGATAGAGAGAAAAAAGATCCAAGAGTTATATGTCCAGAATGTGGC
GTTATTTATGCTAATAAGCAGTCTTTGAAGAAACATATTGCAAATGTTCACATAAAATTA
AAGAAGTTTCAATGCGATAACTGCAATTATTCAACAACTACAAAACATTCATTGAAAAGT
CACATGAAAGTTCACATTGACAAAGCAGAAAGAAGAGTTCACAATTGCGATAAATGTTCT
TTTGTGTCAGTTTGTCAACAAAGCTTGAAACG
>g16093.t3 Gene=g16093 Length=290
MDIFDSSDILEHQTVLNNESQEVTIKSEEPVNKSEKNSPKKSQKRSKRQKLENPAEASKK
SDEQNLQCRLCLATINTNKRNSFVKLTKDIERKFNDVTQKVLHNSDQLSKILCSKCEKDL
KNAIEYREKLINIQNQLESQLPGDKFENVVIKCEVKDESYDDPANDYNFSLFDSTQLLDQ
MEDEIFTPEPFKKVIESKEEKRARKDREKKDPRVICPECGVIYANKQSLKKHIANVHIKL
KKFQCDNCNYSTTTKHSLKSHMKVHIDKAERRVHNCDKCSFVSVCQQSLK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g16093.t3 | Gene3D | G3DSA:3.30.160.60 | Classic Zinc Finger | 188 | 271 | 2.0E-13 |
| 10 | g16093.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 15 | 60 | - |
| 1 | g16093.t3 | Pfam | PF07776 | Zinc-finger associated domain (zf-AD) | 68 | 139 | 4.2E-7 |
| 2 | g16093.t3 | Pfam | PF00096 | Zinc finger, C2H2 type | 216 | 237 | 0.014 |
| 3 | g16093.t3 | Pfam | PF00096 | Zinc finger, C2H2 type | 243 | 265 | 3.5E-4 |
| 9 | g16093.t3 | ProSitePatterns | PS00028 | Zinc finger C2H2 type domain signature. | 216 | 237 | - |
| 12 | g16093.t3 | ProSiteProfiles | PS50157 | Zinc finger C2H2 type domain profile. | 214 | 242 | 9.452 |
| 13 | g16093.t3 | ProSiteProfiles | PS50157 | Zinc finger C2H2 type domain profile. | 243 | 270 | 10.492 |
| 6 | g16093.t3 | SMART | SM00868 | zf_AD_2 | 67 | 140 | 4.7E-5 |
| 7 | g16093.t3 | SMART | SM00355 | c2h2final6 | 214 | 237 | 0.012 |
| 8 | g16093.t3 | SMART | SM00355 | c2h2final6 | 243 | 265 | 3.9E-4 |
| 4 | g16093.t3 | SUPERFAMILY | SSF57716 | Glucocorticoid receptor-like (DNA-binding domain) | 68 | 139 | 3.99E-6 |
| 5 | g16093.t3 | SUPERFAMILY | SSF57667 | beta-beta-alpha zinc fingers | 215 | 265 | 2.38E-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.
