General information for g2443.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g2443 is located on chr_3: 18012433..18012961 (- 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 | g2443 | g2443.t2 | TTS | g2443.t2 | 18010963 | 18010963 |
| chr_3 | g2443 | g2443.t2 | isoform | g2443.t2 | 18011014 | 18011770 |
| chr_3 | g2443 | g2443.t2 | exon | g2443.t2.exon1 | 18011014 | 18011712 |
| chr_3 | g2443 | g2443.t2 | cds | g2443.t2.CDS1 | 18011014 | 18011694 |
| chr_3 | g2443 | g2443.t2 | exon | g2443.t2.exon2 | 18011766 | 18011770 |
| chr_3 | g2443 | g2443.t2 | TSS | g2443.t2 | NA | NA |
Sequences
>g2443.t2 Gene=g2443 Length=704
GGTCTCCAATCGAATGTCGTGTGATGAGGGAAAATAAGCCATCAGCACTACATCCAAATG
GAAAATCTAAGGGTTTTGGATTTTTATCATTTAAAAAGCACGAAGATGCGTTACTTGTTC
TTAGAAAACTCAATAATAATCCAGAAGTTTTTAGTGCCAAACATCGACCCATTGTAAGTT
TCAGCATTGAAGATATGAATGTATTGAAAATCAAAGAAAAACGTAAACAGCGTTCAATGC
TCAATAATCCAACGTATCAAAAGAAACTAGAGAAATTAAAAGTTAAGAAACTTAAAAAAC
AAATGGAGAAAAAAGATAACAAATCAAATACGTTAATAATGAAAAAGAAGCAACGAAAAG
TTAAATCTGATGAGCATGTTGAGTTATACACAGGCTTTGCGTCGAAACCAGGAGCTTTTG
TGAAACTTCGTGGTACGTTTAAACTTAAAGAGCAATCTAGAATTCATGAAAAAACTATGA
AAGAACGTAACAAAAAAGTGAGACGAGAAAAACAACTGGCAGAAGTTCGTCAGGAGAAAC
AAGAGAAAAAATTTGATCGAATATCCAATAAAAGGAAGATTAAAGACACTAATGACACTT
TAGCATCGAAAATAAATAAATACAAAAGTTTAATTGGTGCAAACGAAGAAGCAGATAGCA
AACGACAGAAAATAGGAGCAAGAGGAAAATGGTTTATGGATTGA
>g2443.t2 Gene=g2443 Length=226
MRENKPSALHPNGKSKGFGFLSFKKHEDALLVLRKLNNNPEVFSAKHRPIVSFSIEDMNV
LKIKEKRKQRSMLNNPTYQKKLEKLKVKKLKKQMEKKDNKSNTLIMKKKQRKVKSDEHVE
LYTGFASKPGAFVKLRGTFKLKEQSRIHEKTMKERNKKVRREKQLAEVRQEKQEKKFDRI
SNKRKIKDTNDTLASKINKYKSLIGANEEADSKRQKIGARGKWFMD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g2443.t2 | CDD | cd12416 | RRM4_RBM28_like | 1 | 57 | 3.34482E-22 |
| 6 | g2443.t2 | Coils | Coil | Coil | 80 | 107 | - |
| 5 | g2443.t2 | Coils | Coil | Coil | 156 | 176 | - |
| 4 | g2443.t2 | Gene3D | G3DSA:3.30.70.330 | - | 6 | 62 | 8.4E-9 |
| 1 | g2443.t2 | PANTHER | PTHR24012 | RNA BINDING PROTEIN | 1 | 119 | 4.4E-19 |
| 2 | g2443.t2 | PANTHER | PTHR24012:SF831 | RNA-BINDING MOTIF PROTEIN 28 | 1 | 119 | 4.4E-19 |
| 3 | g2443.t2 | SUPERFAMILY | SSF54928 | RNA-binding domain, RBD | 11 | 39 | 1.92E-6 |
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:0003676 | nucleic acid 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.
