General information for g4818.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g4818 is located on chr_2: 5083268..5084275 (+ 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 | g4818 | g4818.t1 | isoform | g4818.t1 | 5083268 | 5084275 |
| chr_2 | g4818 | g4818.t1 | exon | g4818.t1.exon1 | 5083268 | 5084275 |
| chr_2 | g4818 | g4818.t1 | cds | g4818.t1.CDS1 | 5083268 | 5084275 |
| chr_2 | g4818 | g4818.t1 | TSS | g4818.t1 | NA | NA |
| chr_2 | g4818 | g4818.t1 | TTS | g4818.t1 | NA | NA |
Sequences
>g4818.t1 Gene=g4818 Length=1008
ATGCTCAGGATTTCTGATAAGAAAACACAAATTTTCTGTGAAACAATTGAAAGCAAAAAA
ATCATTTTGGATAAGCTCAAAATTCAGCAGTATAGATTTCATACATTCACGGAGGAATCG
GAAAAATCAAAGATTTTCTTATTGAAGGGCTTTTATTTAGAGAAAGTTGAAAACGTCAAG
AATTATCTGGTTAATGCTGGATTGAAAGTAAAGTCAGTGAAGATATTTATTAATCATGAA
GATTCTCCGATTTATGGTGTACAAATTGAAGAGAAAACTTCAATTTATGCGCTCAATCAT
TGCTATAAAAATATAGATTCAATATTCGTAAGATGGGAAGTTCTTGATCGTAGCAAGAAA
AAACTGACACAGTGCTATAATTGTCAACAATGGGGTCACTCCTCAAACAATTGTGGCTAT
AAATCAAGATGTGTGAAATGCCGAGAGTCACATGCTCCTGGTGAATGCAAAAGGAAGTCA
AGAGAAGGTGATCCAAGTTGCGTTAATTGCGGTGGTAAACATGCTGCAAATTTTCGTGGT
TGCTCAGAATTCATGAAATATCAACAAAAAATTCAATCATTTCGCCAAAAAGCAAAAGCT
AATAATCGCAATCCATGGAATTCAACTTTCCAGAATAAATCAAGAAGCACTCAATTTAAT
TTGTATTCTGAGAATTTTCCTAGTCTGAGTGAGAATTTCAGACCTAGTATTAATAATCAG
ACATTTGATCAACATGTAACATATCCAACTATCAGTTCAACTCAAGATGTAGAAAAGGCC
AATTCATTAATACAAAAATTCAATGAAGCTTGTAAGAAATTGAATGAAATTCCTGATGTA
GAACAAACAATAAACAACTTTATTGACATGGTAAATAAACTTGCTGAAGCCAAAACCGAA
ATGGATAGGCAAATGATCCTGGTTAGACATTTCAATATTCACAAAATAGATCTATCAAAT
GAAACGATTCAACGAATTAGCAATGCATCCAAAAAATTTCCAACTTAG
>g4818.t1 Gene=g4818 Length=335
MLRISDKKTQIFCETIESKKIILDKLKIQQYRFHTFTEESEKSKIFLLKGFYLEKVENVK
NYLVNAGLKVKSVKIFINHEDSPIYGVQIEEKTSIYALNHCYKNIDSIFVRWEVLDRSKK
KLTQCYNCQQWGHSSNNCGYKSRCVKCRESHAPGECKRKSREGDPSCVNCGGKHAANFRG
CSEFMKYQQKIQSFRQKAKANNRNPWNSTFQNKSRSTQFNLYSENFPSLSENFRPSINNQ
TFDQHVTYPTISSTQDVEKANSLIQKFNEACKKLNEIPDVEQTINNFIDMVNKLAEAKTE
MDRQMILVRHFNIHKIDLSNETIQRISNASKKFPT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g4818.t1 | Coils | Coil | Coil | 257 | 277 | - |
| g4818.t1 | ProSiteProfiles | PS50158 | Zinc finger CCHC-type profile. | 125 | 138 | 8.746 |
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:0008270 | zinc ion binding | MF |
| 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.
