General information for g12442.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g12442 is located on chr_1: 23670383..23670998 (- 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_1 | g12442 | g12442.t4 | TTS | g12442.t4 | 23670306 | 23670306 |
| chr_1 | g12442 | g12442.t4 | isoform | g12442.t4 | 23670383 | 23670998 |
| chr_1 | g12442 | g12442.t4 | exon | g12442.t4.exon1 | 23670383 | 23670848 |
| chr_1 | g12442 | g12442.t4 | cds | g12442.t4.CDS1 | 23670538 | 23670848 |
| chr_1 | g12442 | g12442.t4 | exon | g12442.t4.exon2 | 23670914 | 23670998 |
| chr_1 | g12442 | g12442.t4 | cds | g12442.t4.CDS2 | 23670914 | 23670998 |
| chr_1 | g12442 | g12442.t4 | TSS | g12442.t4 | 23671109 | 23671109 |
Sequences
>g12442.t4 Gene=g12442 Length=551
ATGAGAATAGAAACGTGTTATTTTTGTTCAAGTAAAATTTATCCAGGACATGGAATGCTT
TTCGTTAGAAATGATTGCAAAGTAAATTTTGTCGTAAAAAGTGTAGGAAAGCGTTTCAAA
GAAAGAAGAATCCAAGAAAGGCAAAATGGACAAAGGCATATCGTAAATTGGCTGGAAAAG
AGCTCACAATTGATCCATGTTTTGAATTTGAGAAACGAAGAAATGTTCCAGTCAAATATG
ATCGTGAGTTGTGGACAAAAACAATTGATGCAATCAAAAAGATCAATGAAATCAAAGAAA
GACGTGAAAGACACTTTGTTATGGAGAGATTGCGTAAAGGAACACAACGTGAAATTCACA
ATGATATTCGTGATGTACAAAAGAATCTATCATTGATTAGAGCACCAGAAGGAATTCGAA
AGAAGGATACAGAAGACGAAATGAAAATGGAAGAAGATGAAGAAGAAATCGAGTACATGC
CTGCACTTGAAATGGAAAAGAAATTATCTGCTGGTATTATGGATATCGATACTGTGAAAA
TGAAGAATTAA
>g12442.t4 Gene=g12442 Length=131
MRIETCYFCSSKIYPGHGMLFVRNDCKVNFVVKSVGKRFKERRIQERQNGQRHIVNWLEK
SSQLIHVLNLRNEEMFQSNMIVSCGQKQLMQSKRSMKSKKDVKDTLLWRDCVKEHNVKFT
MIFVMYKRIYH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g12442.t4 | Gene3D | G3DSA:2.30.170.20 | - | 1 | 53 | 2.7E-13 |
| 1 | g12442.t4 | Pfam | PF01246 | Ribosomal protein L24e | 1 | 43 | 2.1E-13 |
| 3 | g12442.t4 | ProSitePatterns | PS01073 | Ribosomal protein L24e signature. | 8 | 25 | - |
| 2 | g12442.t4 | SUPERFAMILY | SSF57716 | Glucocorticoid receptor-like (DNA-binding domain) | 4 | 40 | 1.57E-8 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
