General information for g16250.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g16250 is located on chr_4: 8855420..8858291 (- 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 | g16250 | g16250.t3 | TTS | g16250.t3 | 8855419 | 8855419 |
| chr_4 | g16250 | g16250.t3 | isoform | g16250.t3 | 8855420 | 8856186 |
| chr_4 | g16250 | g16250.t3 | exon | g16250.t3.exon1 | 8855420 | 8856186 |
| chr_4 | g16250 | g16250.t3 | cds | g16250.t3.CDS1 | 8855420 | 8856130 |
| chr_4 | g16250 | g16250.t3 | TSS | g16250.t3 | NA | NA |
Sequences
>g16250.t3 Gene=g16250 Length=767
GTGGTGGTAGAACATTGTATACAAATGTCGAAGATGATGATGATGAACATGATGAAATGA
ATATTGTCAAAACATTGGACATAATGCAAATGTTGCAACATTTATTGGAACAAAGTGATG
ACATGAGAATAACAAAAGTTTTAATTTGTGGCTTTTGTAAAATGATTTTACATGGTGCAT
ACTGCACTCGTGATCTTATGTCGAAATTTCTTTTAATGTATTTTAATCCTGCAATGCCTG
CTGAAATAACTCAATTGTTGGGTGTTTTCTTGGAAAATGTAATTAAGAAAAAGAAACAAG
AATATTTGCATGATGCTTTGACTCCCACAATTTTTACATTAGTTGAAGCTCCTTATGATT
CACCATTGCGTGAAGTTAAACTTGAAACTGTTTTAAAATACATCGTTAATGCAACAAGAC
CAATTTTCTGTAGTAATGGACTTAATTTGCATAACACTCTTGGTATGGAATTTTTAAATG
TTATGAAAGAAAATCCAGACAGTAAAGAAATTTTAAAGATTTTTGCTAAAGAATTAGCTG
AGCTTGAAATTGGTGAAGATGCAATTTTAAAGAAAGACATGACAAAACAAATTGAAACAA
TTTTAAAAGAATCATCAGCTGATGCTCGTACAAAGAAATATTTGACTGATTTTAGTAAAA
TATTGAATGGAACATATCGAACACCATTGACATTTTCAAGTACAGCAAAAGCACCAAAAG
GTAATGAAGAAGAAGAAGATGAAGATCAATTGGAAAATATTGAAGAA
>g16250.t3 Gene=g16250 Length=237
MNIVKTLDIMQMLQHLLEQSDDMRITKVLICGFCKMILHGAYCTRDLMSKFLLMYFNPAM
PAEITQLLGVFLENVIKKKKQEYLHDALTPTIFTLVEAPYDSPLREVKLETVLKYIVNAT
RPIFCSNGLNLHNTLGMEFLNVMKENPDSKEILKIFAKELAELEIGEDAILKKDMTKQIE
TILKESSADARTKKYLTDFSKILNGTYRTPLTFSSTAKAPKGNEEEEDEDQLENIEE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g16250.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 213 | 237 | - |
| 2 | g16250.t3 | PANTHER | PTHR14418:SF5 | CONDENSIN COMPLEX SUBUNIT 3 | 6 | 234 | 3.8E-27 |
| 3 | g16250.t3 | PANTHER | PTHR14418 | CONDENSIN COMPLEX SUBUNIT 3-RELATED | 6 | 234 | 3.8E-27 |
| 1 | g16250.t3 | Pfam | PF12719 | Nuclear condensing complex subunits, C-term domain | 6 | 165 | 5.2E-25 |
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:0000796 | condensin complex | CC |
| GO:0007076 | mitotic chromosome condensation | BP |
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.
