General information for g954.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g954 is located on chr_3: 7023992..7024428 (+ 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_3 | g954 | g954.t1 | TSS | g954.t1 | 7023540 | 7023540 |
| chr_3 | g954 | g954.t1 | isoform | g954.t1 | 7023992 | 7024428 |
| chr_3 | g954 | g954.t1 | exon | g954.t1.exon1 | 7023992 | 7024094 |
| chr_3 | g954 | g954.t1 | cds | g954.t1.CDS1 | 7023992 | 7024094 |
| chr_3 | g954 | g954.t1 | exon | g954.t1.exon2 | 7024178 | 7024428 |
| chr_3 | g954 | g954.t1 | cds | g954.t1.CDS2 | 7024178 | 7024428 |
| chr_3 | g954 | g954.t1 | TTS | g954.t1 | 7025389 | 7025389 |
Sequences
>g954.t1 Gene=g954 Length=354
ATGGCAATCGCGCACTCTATTATTATTCAAGCATACGCTAATACAGATGTTAAAAATGAC
CAAACTCTGATTGAACTTAGAGATACATTTATAGATATGATAGTATCGAATATTGAAATT
AAAGAATTAAAATCATTGATTGATAGCAACAAAGACCCAGAAAATGTTGTTAGTGAAAAA
GTTTATTGGACTGTAAATTTTGACAAATTACATCAATGTTTTCGTGATAAAGTTCTTATA
GATGCAATCGAACGTCAAATTGATGCAAATGCACCGAGTGTTTTCAATTTATCATATCAC
TCATGTACAAAACAACTGAAGCATGGGAACCAGTGTCAAATGCAATTTCAATAG
>g954.t1 Gene=g954 Length=117
MAIAHSIIIQAYANTDVKNDQTLIELRDTFIDMIVSNIEIKELKSLIDSNKDPENVVSEK
VYWTVNFDKLHQCFRDKVLIDAIERQIDANAPSVFNLSYHSCTKQLKHGNQCQMQFQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g954.t1 | Gene3D | G3DSA:1.10.10.10 | winged helix repressor DNA binding domain | 66 | 114 | 3.3e-05 |
| 1 | g954.t1 | Pfam | PF05645 | RNA polymerase III subunit RPC82 | 45 | 99 | 0.0e+00 |
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:0003677 | DNA binding | MF |
| GO:0006351 | transcription, DNA-templated | 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.
