General information for g618.t8
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g618 is located on chr_3: 4532800..4533851 (- 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 | g618 | g618.t8 | TTS | g618.t8 | 4531187 | 4531187 |
| chr_3 | g618 | g618.t8 | isoform | g618.t8 | 4531392 | 4533851 |
| chr_3 | g618 | g618.t8 | exon | g618.t8.exon1 | 4531392 | 4531453 |
| chr_3 | g618 | g618.t8 | exon | g618.t8.exon2 | 4531572 | 4531898 |
| chr_3 | g618 | g618.t8 | exon | g618.t8.exon3 | 4531981 | 4532216 |
| chr_3 | g618 | g618.t8 | cds | g618.t8.CDS1 | 4532101 | 4532216 |
| chr_3 | g618 | g618.t8 | exon | g618.t8.exon4 | 4532277 | 4532396 |
| chr_3 | g618 | g618.t8 | cds | g618.t8.CDS2 | 4532277 | 4532396 |
| chr_3 | g618 | g618.t8 | exon | g618.t8.exon5 | 4532820 | 4532854 |
| chr_3 | g618 | g618.t8 | cds | g618.t8.CDS3 | 4532820 | 4532854 |
| chr_3 | g618 | g618.t8 | exon | g618.t8.exon6 | 4533552 | 4533612 |
| chr_3 | g618 | g618.t8 | cds | g618.t8.CDS4 | 4533552 | 4533612 |
| chr_3 | g618 | g618.t8 | exon | g618.t8.exon7 | 4533688 | 4533759 |
| chr_3 | g618 | g618.t8 | cds | g618.t8.CDS5 | 4533688 | 4533759 |
| chr_3 | g618 | g618.t8 | exon | g618.t8.exon8 | 4533842 | 4533851 |
| chr_3 | g618 | g618.t8 | cds | g618.t8.CDS6 | 4533842 | 4533851 |
| chr_3 | g618 | g618.t8 | TSS | g618.t8 | 4534008 | 4534008 |
Sequences
>g618.t8 Gene=g618 Length=923
ATGGCAAATCAGGATTATAACAATTATCAAAGCTACGGTGGTGGCCAACAAGACTATGGA
AGTGGAAATAATTATGGTGGAGATTACCAAGGAAATGGAAACAATTATCGCGGTGGCAAT
TTCAACAAAGGAGGAAATTTTGGCGGAAACAACAGAAGTGGTGGTTATAATAACAAAGGC
GGTAGTGGTGGCGATATGGTCGTTCAAGATGACACAATTTTCGTAAGTGGAATGGATCCT
CAAATTACAGAATCAGAGATCAATAATCACTTTGGAAGTATTGGTATTATCAAGAAAGAG
ACAAACGTACCAATAAGCCAAAAATTTGGATCTACAAAGATAAAGCAACTGGTGAAGGCA
AAGGTGAATGCACAATTACTTATGACGATCCTTGTACTGCATCAAGTGCAATAGAATGGT
TCGATGGAAAGGAATTCAATGGTTATTCTATCAAAGTTCAATTGGCTCAACGAAACAACA
GTTGGCAAAAAGGTGGACCAAAGAAATTTGGTGGTCAAGGCGGTGAAAGAGGAGGTCGAG
GTGGATTTGGAGGAAGTGACAGAAATTTTTCACGACAAAATGACGATCGAGGTCCGCGAG
GTGGAGGAAGTGGTGGAAACTCAGGTGGACAACATCGAGAAGGAGATTGGATTTGTTCAG
AATGCTCTAATAAGAATTTTGCATGGCGAAATGAATGTAACCGATGTAAGGAACCAAAAG
GTGACAATGCTGGAAGTGCACCAAGTGGTGGCGGTGGAAACAGAGGCTATGGCTCAGGTG
ATCGAGGTGGTCCACGAAATTTTGGAAATAGAGATGGAGGAAATGGTGGCAACCGTAATT
TTAATCGCGGCGGAATGAAAGGTGGCGATCGTCAATCATCAGGAGGAGGTGGTGGTGGTT
TTAACAGACAAAGACCATATTAA
>g618.t8 Gene=g618 Length=137
MANQDYNNYQSYGGGQQDYGSGNNYGGDYQGNGNNYRGGNFNKGGNFGGNNRSGGYNNKG
GSGGDMVVQDDTIFVSGMDPQITESEINNHFGSIGIIKKETNVPISQKFGSTKIKQLVKA
KVNAQLLMTILVLHQVQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g618.t8 | SUPERFAMILY | SSF54928 | RNA-binding domain, RBD | 17 | 99 | 4e-07 |
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. There were no conditions that were differentially expressed