General information for g3478.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g3478 is located on chr_3: 25807629..25807952 (+ 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 | g3478 | g3478.t1 | isoform | g3478.t1 | 25807629 | 25807952 |
| chr_3 | g3478 | g3478.t1 | exon | g3478.t1.exon1 | 25807629 | 25807952 |
| chr_3 | g3478 | g3478.t1 | cds | g3478.t1.CDS1 | 25807629 | 25807952 |
| chr_3 | g3478 | g3478.t1 | TSS | g3478.t1 | NA | NA |
| chr_3 | g3478 | g3478.t1 | TTS | g3478.t1 | NA | NA |
Sequences
>g3478.t1 Gene=g3478 Length=324
ATGCAATCAGAGTTAGAAAAGAAAACAATTGACAAAATTGTTAAGGAAAAGATTGAAAAA
TTTCTGGCTGAAGAGAAAACTTTTCGTAGTGATAAAGTGAAGCGTTGGTGTGATGGAATC
AGTCGTGATTGCTTGCGTGATTTTGGAAAACTTCAAAAACCATACAAATTTATTGTAACT
TGCATTATCAATCAAAGATGTGGAAACGCACTTTTTCAAGATGTCTCGACTTTTATGGAT
CCAATTAAAGATCTTGTCACAACTGTTTATTGGAAAAATGATCTTTTACATTGCATTGTG
ACTGTTTATGCATTGATTGTATAA
>g3478.t1 Gene=g3478 Length=107
MQSELEKKTIDKIVKEKIEKFLAEEKTFRSDKVKRWCDGISRDCLRDFGKLQKPYKFIVT
CIINQRCGNALFQDVSTFMDPIKDLVTTVYWKNDLLHCIVTVYALIV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g3478.t1 | Gene3D | G3DSA:3.30.1140.40 | - | 8 | 107 | 0 |
| 2 | g3478.t1 | PANTHER | PTHR21255 | T-COMPLEX-ASSOCIATED-TESTIS-EXPRESSED 1/ DYNEIN LIGHT CHAIN | 3 | 105 | 0 |
| 3 | g3478.t1 | PANTHER | PTHR21255:SF4 | DYNEIN LIGHT CHAIN TCTEX-TYPE | 3 | 105 | 0 |
| 1 | g3478.t1 | Pfam | PF03645 | Tctex-1 family | 10 | 105 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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