General information for g4502.t20
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g4502 is located on chr_2: 2920023..2924003 (- 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 | g4502 | g4502.t20 | TTS | g4502.t20 | 2918931 | 2918931 |
| chr_2 | g4502 | g4502.t20 | isoform | g4502.t20 | 2919012 | 2919924 |
| chr_2 | g4502 | g4502.t20 | exon | g4502.t20.exon1 | 2919012 | 2919146 |
| chr_2 | g4502 | g4502.t20 | cds | g4502.t20.CDS1 | 2919012 | 2919146 |
| chr_2 | g4502 | g4502.t20 | exon | g4502.t20.exon2 | 2919239 | 2919674 |
| chr_2 | g4502 | g4502.t20 | cds | g4502.t20.CDS2 | 2919239 | 2919640 |
| chr_2 | g4502 | g4502.t20 | exon | g4502.t20.exon3 | 2919733 | 2919924 |
| chr_2 | g4502 | g4502.t20 | TSS | g4502.t20 | 2920096 | 2920096 |
Sequences
>g4502.t20 Gene=g4502 Length=763
TGATTTTGATGATGAAGAAGAAAATAAACAAGTGCAAGAAGAGGAGGAAACAGCAGCATA
TAATCCAATAATTCGACCAGAAACTCAAAGATCTGTACAATTTCAGCAATTGCAACATTC
TGATACTAGCTCGAATGAATCAGATGATGAAGAAGAAAATATTAAAAAAATACCACCATC
ACAAAAGCCAAAATTTAGTAATAAAAGTGGAAATTTATGGGCGCAAATGCTTCAAGAAGA
AGATCTCATGGATAATTTAAAATCTTGCGAAGTAAATAGAAAGAGAAAGTATGAAGTTGA
TAGAGGAGTAGAGACTTACAAACTAGAAGATCCAGTTAATTATAAGAAACAACGAACTGA
TACAGCTTCTTCTGCTGATGAACCAAGCATTATTCGGAAATATGCTAAAGGGAAAATTAA
ATCTCTTCATAAACCCAAAAAACTTGAAGACCTTGTTGTAGCAGACAATTATAATGATGA
AGATTATGGTATTGAAGTAGCGAAAAAATTAAGTGAACAAAATGTTGATTTGATACACAA
AGTAGTAGCGACAATAGGAAGAGAGAAAGTTAATGATTTGTATGAAAAAACACGAAACAT
TGAACGAAAAGGAGGAATGCTTATTGTGAACAAATCACGTCGTAGAACTTCTGGTGGAAT
TTTTTTATTTCTTTTAAAGACTTCCAATGTTATAGATGAAGCTCAAAAAAAAGAGATTTT
TGATGATGGAAAAGAAGAAGCAACAAAAGAGTTATCTACCTAG
>g4502.t20 Gene=g4502 Length=178
MLQEEDLMDNLKSCEVNRKRKYEVDRGVETYKLEDPVNYKKQRTDTASSADEPSIIRKYA
KGKIKSLHKPKKLEDLVVADNYNDEDYGIEVAKKLSEQNVDLIHKVVATIGREKVNDLYE
KTRNIERKGGMLIVNKSRRRTSGGIFLFLLKTSNVIDEAQKKEIFDDGKEEATKELST
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g4502.t20 | Gene3D | G3DSA:1.10.10.1440 | - | 78 | 177 | 0 |
| 2 | g4502.t20 | PANTHER | PTHR13135 | CYTOSOLIC RESINIFERATOXIN BINDING PROTEIN RBP-26 | 2 | 172 | 0 |
| 1 | g4502.t20 | Pfam | PF10258 | PHAX RNA-binding domain | 90 | 169 | 0 |
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:0006408 | snRNA export from nucleus | 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.
