General information for g8970.t8
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Dynactin subunit 5.
Parent gene
- The parent gene g8970 is located on chr_2: 34263618..34265158 (+ 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 | g8970 | g8970.t8 | TSS | g8970.t8 | 34263312 | 34263312 |
| chr_2 | g8970 | g8970.t8 | isoform | g8970.t8 | 34263387 | 34264874 |
| chr_2 | g8970 | g8970.t8 | exon | g8970.t8.exon1 | 34263387 | 34263449 |
| chr_2 | g8970 | g8970.t8 | cds | g8970.t8.CDS1 | 34263387 | 34263449 |
| chr_2 | g8970 | g8970.t8 | exon | g8970.t8.exon2 | 34263504 | 34263552 |
| chr_2 | g8970 | g8970.t8 | cds | g8970.t8.CDS2 | 34263504 | 34263552 |
| chr_2 | g8970 | g8970.t8 | exon | g8970.t8.exon3 | 34263618 | 34263681 |
| chr_2 | g8970 | g8970.t8 | cds | g8970.t8.CDS3 | 34263618 | 34263681 |
| chr_2 | g8970 | g8970.t8 | exon | g8970.t8.exon4 | 34263736 | 34263853 |
| chr_2 | g8970 | g8970.t8 | cds | g8970.t8.CDS4 | 34263736 | 34263853 |
| chr_2 | g8970 | g8970.t8 | exon | g8970.t8.exon5 | 34264665 | 34264874 |
| chr_2 | g8970 | g8970.t8 | cds | g8970.t8.CDS5 | 34264665 | 34264874 |
| chr_2 | g8970 | g8970.t8 | TTS | g8970.t8 | 34265025 | 34265025 |
Sequences
>g8970.t8 Gene=g8970 Length=504
ATGGAAATTTGTGACATGTATTATAATAAAGATGAGTTTGTAGAAACTGCATCAGGAAAT
AAAGTAAATCGACAAACTGTATTGTGTGGAAGTCAAAATATTGTATTGCATGGTAAAGTA
ATAGTTGATAAGGGAGCAATAATTCGTGGAGATCTGGCAAATGTGAGAACTGGAAGCAAA
GGAGTTGCTTTCTTCCCTCTTCATATTGGAGATCATGTTTATATTGGTGAAAATTCTGTT
GTGAGTGCTGCAAGTATTGGATCTTATGTTTATATAGGCAAAAATGTTGTGATTGGACGA
AGATGTGTAATTAAAGATTGTACTATTATTGAAGATAACTCAGTATTGCCTCCTGAAACA
ACACTAGCAAGTTTTATGAAATTTAATAATGATGGAACAATTGAGGGCGGACAGGGAACT
GAATCGGTTCCTGCGGCTATGCAAGACTTAATGGTTGATTTTACTAAATCATATTATGAT
CATTTTTTAATGGCTAAATCTTAA
>g8970.t8 Gene=g8970 Length=167
MEICDMYYNKDEFVETASGNKVNRQTVLCGSQNIVLHGKVIVDKGAIIRGDLANVRTGSK
GVAFFPLHIGDHVYIGENSVVSAASIGSYVYIGKNVVIGRRCVIKDCTIIEDNSVLPPET
TLASFMKFNNDGTIEGGQGTESVPAAMQDLMVDFTKSYYDHFLMAKS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g8970.t8 | CDD | cd03359 | LbH_Dynactin_5 | 13 | 159 | 0.0e+00 |
| 6 | g8970.t8 | Gene3D | G3DSA:2.160.10.10 | Hexapeptide repeat proteins | 18 | 166 | 0.0e+00 |
| 4 | g8970.t8 | PANTHER | PTHR46126 | DYNACTIN SUBUNIT 5 | 1 | 58 | 0.0e+00 |
| 3 | g8970.t8 | PANTHER | PTHR46126 | DYNACTIN SUBUNIT 5 | 58 | 164 | 0.0e+00 |
| 2 | g8970.t8 | Pfam | PF14602 | Hexapeptide repeat of succinyl-transferase | 66 | 83 | 6.9e-02 |
| 1 | g8970.t8 | Pfam | PF00132 | Bacterial transferase hexapeptide (six repeats) | 85 | 116 | 2.8e-06 |
| 5 | g8970.t8 | SUPERFAMILY | SSF51161 | Trimeric LpxA-like enzymes | 17 | 123 | 0.0e+00 |
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.
