General information for g1139.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Dynactin subunit 6.
Parent gene
- The parent gene g1139 is located on chr_3: 8382620..8389318 (+ 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 | g1139 | g1139.t1 | TSS | g1139.t1 | 8381883 | 8381883 |
| chr_3 | g1139 | g1139.t1 | isoform | g1139.t1 | 8381942 | 8382620 |
| chr_3 | g1139 | g1139.t1 | exon | g1139.t1.exon1 | 8381942 | 8381955 |
| chr_3 | g1139 | g1139.t1 | cds | g1139.t1.CDS1 | 8381942 | 8381955 |
| chr_3 | g1139 | g1139.t1 | exon | g1139.t1.exon2 | 8382012 | 8382093 |
| chr_3 | g1139 | g1139.t1 | cds | g1139.t1.CDS2 | 8382012 | 8382093 |
| chr_3 | g1139 | g1139.t1 | exon | g1139.t1.exon3 | 8382150 | 8382620 |
| chr_3 | g1139 | g1139.t1 | cds | g1139.t1.CDS3 | 8382150 | 8382620 |
| chr_3 | g1139 | g1139.t1 | TTS | g1139.t1 | 8382932 | 8382932 |
Sequences
>g1139.t1 Gene=g1139 Length=567
ATGTCGAAATTAGAGAACAAAATAAAAGTCATGCCAAAAGCAGTGGTCTGTGAGGATTCC
ACAATAAAAGGCGATGTAACTATTTGTAGTGGCAGTGTAATTCATCCATCTGCACAAATT
ATTGCTGAATCTGGACCTATCATAATAGGAGAAAATTGTATAATTGAAGAGTATGCAAAA
ATTATTCATCGAATTCCACCCGATCACAAGTTGGCTCAAGAGAAAAACCATGTTTTAGTT
ATTGGTGCAAATAATTTATTTGAAGTTGGTTCAACAGTTGAAGCATTAAAAATTGGTGAA
AAGAATATTTTTGAATGTAAAAGTTATGTTTCATCTAATGTAACTATTTCAAGTGGGTGT
GTAATTGGGGCAGGTTGTCATGTTGTAGGTGAACAACACTTGCCTGAAAATACTGTGATA
TTTGGAAAAAATTGTCAGCAAAGAGAAGCATTAGATAAAGTGTCTGGATCACATATGCTT
CAACTTGATTTTCTACGCAAAGTATTACCAAACTATCATCATCTACGAAAACCATGTGAC
ATCAAAAAAGCTGCAAATTTGAGTTAA
>g1139.t1 Gene=g1139 Length=188
MSKLENKIKVMPKAVVCEDSTIKGDVTICSGSVIHPSAQIIAESGPIIIGENCIIEEYAK
IIHRIPPDHKLAQEKNHVLVIGANNLFEVGSTVEALKIGEKNIFECKSYVSSNVTISSGC
VIGAGCHVVGEQHLPENTVIFGKNCQQREALDKVSGSHMLQLDFLRKVLPNYHHLRKPCD
IKKAANLS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g1139.t1 | CDD | cd04646 | LbH_Dynactin_6 | 9 | 177 | 0.000 |
| 4 | g1139.t1 | Gene3D | G3DSA:2.160.10.10 | Hexapeptide repeat proteins | 12 | 182 | 0.000 |
| 2 | g1139.t1 | PANTHER | PTHR13072 | DYNACTIN 6 | 2 | 179 | 0.000 |
| 1 | g1139.t1 | Pfam | PF00132 | Bacterial transferase hexapeptide (six repeats) | 96 | 128 | 0.001 |
| 3 | g1139.t1 | SUPERFAMILY | SSF51161 | Trimeric LpxA-like enzymes | 6 | 175 | 0.000 |
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:0005869 | dynactin complex | CC |
KEGG
Orthology
- This transcript has been annotated with K10428 (dynactin 6)
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.
