General information for g14725.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative WASH complex subunit 3.
Parent gene
- The parent gene g14725 is located on chr_4: 2029512..2030183 (- 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_4 | g14725 | g14725.t1 | TTS | g14725.t1 | 2029427 | 2029427 |
| chr_4 | g14725 | g14725.t1 | isoform | g14725.t1 | 2029512 | 2030183 |
| chr_4 | g14725 | g14725.t1 | exon | g14725.t1.exon1 | 2029512 | 2029856 |
| chr_4 | g14725 | g14725.t1 | cds | g14725.t1.CDS1 | 2029512 | 2029856 |
| chr_4 | g14725 | g14725.t1 | exon | g14725.t1.exon2 | 2030022 | 2030183 |
| chr_4 | g14725 | g14725.t1 | cds | g14725.t1.CDS2 | 2030022 | 2030183 |
| chr_4 | g14725 | g14725.t1 | TSS | g14725.t1 | 2030446 | 2030446 |
Sequences
>g14725.t1 Gene=g14725 Length=507
ATGGCACTAAATAGCAAAAGAACACAAACATTTTTCAATGAATTTCTCATTACAACGACT
CAATTTTTAAACCAATTTATGAATGACTGTGAAAATAAATTTTTTGAATTTGAAAGAAAA
TTGAATAGAATCGAAAGTAATTTAGTCATTATTGAAGCAAAGCTTGCATCAGTACCAGAT
GAACTACCAATATCAGAACCACAAAAAACACCAGAACAACTTTTATCAGTAACTCAAGAA
CCGCAAAAACCACAAGAAGAACAAACCAAACAAGTTCAAGAAGAAACTTCCATTCAATCA
CAACCAGAACCAAAGATTGAAAACACAAACATGATTAAAATTTCAGAATCATTTTTATAT
AAAAAATACTTCAAAATGGTCAAATTTGGTGTTCATACACAAGCAGTGAAAAATAAAATG
AACTCAGAAGGTCTTGATGCAAATTTACTTGACAATCCAGATTTGATGATTGAAAAATGT
CCAGAGGATGAAGAAATTGAAGAATAA
>g14725.t1 Gene=g14725 Length=168
MALNSKRTQTFFNEFLITTTQFLNQFMNDCENKFFEFERKLNRIESNLVIIEAKLASVPD
ELPISEPQKTPEQLLSVTQEPQKPQEEQTKQVQEETSIQSQPEPKIENTNMIKISESFLY
KKYFKMVKFGVHTQAVKNKMNSEGLDANLLDNPDLMIEKCPEDEEIEE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g14725.t1 | Coils | Coil | Coil | 27 | 47 | - |
| 3 | g14725.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 62 | 107 | - |
| 4 | g14725.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 69 | 107 | - |
| 2 | g14725.t1 | PANTHER | PTHR13015 | PROTEIN AD-016-RELATED | 3 | 165 | 1.0E-28 |
| 1 | g14725.t1 | Pfam | PF10152 | Subunit CCDC53 of WASH complex | 12 | 151 | 6.6E-34 |
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:0071203 | WASH complex | CC |
KEGG
Orthology
- This transcript has been annotated with K18463 (WASH complex subunit CCDC53)
Pathway
- This transcript belongs to the following pathways
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.
