General information for g6460.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g6460 is located on chr_2: 17149523..17150206 (- 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_2 | g6460 | g6460.t3 | isoform | g6460.t3 | 17148785 | 17149523 |
| chr_2 | g6460 | g6460.t3 | exon | g6460.t3.exon1 | 17148785 | 17149523 |
| chr_2 | g6460 | g6460.t3 | cds | g6460.t3.CDS1 | 17149164 | 17149523 |
| chr_2 | g6460 | g6460.t3 | TSS | g6460.t3 | 17150264 | 17150264 |
| chr_2 | g6460 | g6460.t3 | TTS | g6460.t3 | NA | NA |
Sequences
>g6460.t3 Gene=g6460 Length=739
ATGCCTTATGGGATTTCGACTTATGGCCAATCGGCGCAAATAGACTCTCCCTTACAGCAT
ACGGGTGCACTTATTCCACAACATATGGGAGGCACAACAATTTACGCTGGATCAGATAGT
AATAATGGAAGTCCGAGTGCTGTCTCATCAACAGCATTACAGACGACATCACAAGCAGTC
GCAACATCCTCTCTTTTTCGTAATGAAGATAAGCGACTCACACGTGAGGCTATGGAAAAA
TATCTTCGAAATCGCAATGACATGATCATTGTAATTTTACATGCTAAGGTAATTACTAAT
TTTTTTTTATTTTGTCATATACATGAATCTAAATACACAAAAATAATAATCATGTTATAA
TGTGCAGTCGATGGCAGTTGAATTGTTGAGAGTGGAAGTCATTTATTATTTTTCCGTACT
TTATCTATATTTTCTGATTATAAACATACACACAACATCAGTAGCACAAGCGACAGCAAC
AGCAATTGTTCAATTTCCCATGCTTCTGATTTTTCAACTTATTTTTTCAATTATCACCGA
GCTTGGGATTATCTTTTAGATCCACTTGAATAAAAATGACTGACTGAAATGAATTTGAAT
GAATGTTATAAAAAAGCTTTTTTTATCTCTCCTGCGCGCGGTACAACCATCATCATCGCT
TCCGCATCAAGAATTCTTCAAAATACAGAAGATTTCACTTAAAAAGTTTTTTTTATTAAT
TTGCAAAATAAGGAAAGAA
>g6460.t3 Gene=g6460 Length=119
MPYGISTYGQSAQIDSPLQHTGALIPQHMGGTTIYAGSDSNNGSPSAVSSTALQTTSQAV
ATSSLFRNEDKRLTREAMEKYLRNRNDMIIVILHAKVITNFFLFCHIHESKYTKIIIML
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g6460.t3 | Gene3D | G3DSA:2.60.40.1450 | - | 67 | 99 | 5.8e-05 |
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:0003677 | DNA binding | MF |
| GO:0006355 | regulation of transcription, DNA-templated | BP |
| GO:0003700 | DNA-binding transcription factor activity | 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.
