General information for g3382.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Dynactin subunit 4.
Parent gene
- The parent gene g3382 is located on chr_3: 24996029..24996967 (+ 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 | g3382 | g3382.t2 | TSS | g3382.t2 | 24995077 | 24995077 |
| chr_3 | g3382 | g3382.t2 | isoform | g3382.t2 | 24995119 | 24996117 |
| chr_3 | g3382 | g3382.t2 | exon | g3382.t2.exon1 | 24995119 | 24995244 |
| chr_3 | g3382 | g3382.t2 | cds | g3382.t2.CDS1 | 24995119 | 24995244 |
| chr_3 | g3382 | g3382.t2 | exon | g3382.t2.exon2 | 24995307 | 24995753 |
| chr_3 | g3382 | g3382.t2 | cds | g3382.t2.CDS2 | 24995307 | 24995753 |
| chr_3 | g3382 | g3382.t2 | exon | g3382.t2.exon3 | 24995814 | 24995976 |
| chr_3 | g3382 | g3382.t2 | cds | g3382.t2.CDS3 | 24995814 | 24995976 |
| chr_3 | g3382 | g3382.t2 | exon | g3382.t2.exon4 | 24996034 | 24996117 |
| chr_3 | g3382 | g3382.t2 | cds | g3382.t2.CDS4 | 24996034 | 24996116 |
| chr_3 | g3382 | g3382.t2 | TTS | g3382.t2 | 24997047 | 24997047 |
Sequences
>g3382.t2 Gene=g3382 Length=820
ATGGAATATTTATTATCAAAAAATGTAGAATATGTCTGCGAATGTGGACTTTTAAAGCCG
CTAACTAATCTTTACTTCTGTAGACATTGCTTAAACTTAAGATGTTTCTTTTGCTGCCAT
CATGAGGTGGACTCGCATTTCTGTCGAAATTGTCTTGAAAATATTCCTTCAGGAGAGGCA
AAATTAAGGAAGAATAAATGTAATACTTGCTTTGATTGTCCTTCATGCACTTTGTCGGCT
CTCTCTGCACGAGCTACAACAATTCAAGTTCCAATGACAAAAGAAGTGAAAGAAGGTGGT
GAGGGATCTGAAATAGAAGCGAGCAGCGGTAAAATGGTTTCAAAAAAGATGTACTATTTA
GCATGTTTGGCTTGTCGTTTTTCATCGCGAGATGTAGGGATTAGTGATCAGCCATCTCAA
AATTTTTTTTGGCCTGAGCAAGAATATATGCATGCAATAAGATTCAATACAATATTGAAT
CATTATTACTCAGTTGTGCTTCATGATAAGCAGCTTAAACAGGAAGAAAGACGTCGTCGA
TCGACAAAACAGTCGAAATTCCCAAACATGACTGATCGCACTGGATTAAATGTTTCAGCT
ATAAGACGTCAAATGGGATTTGATAAAAGTGCAGCTAAACCTAAAAGTAAACCGACTGCA
ATAGCACCATCAATTGCAGAGGATGTTGATGATTTACCAGAAGAGATCTTTACTCAGCCT
ATTAATTTGAAAAATATAACAACTATTCAGCAGCGTTTTACGCAACCAGCTAATCAACCA
GAAAGTGTTAAGCATCTGTATCCACAACATAAGAATCTCT
>g3382.t2 Gene=g3382 Length=273
MEYLLSKNVEYVCECGLLKPLTNLYFCRHCLNLRCFFCCHHEVDSHFCRNCLENIPSGEA
KLRKNKCNTCFDCPSCTLSALSARATTIQVPMTKEVKEGGEGSEIEASSGKMVSKKMYYL
ACLACRFSSRDVGISDQPSQNFFWPEQEYMHAIRFNTILNHYYSVVLHDKQLKQEERRRR
STKQSKFPNMTDRTGLNVSAIRRQMGFDKSAAKPKSKPTAIAPSIAEDVDDLPEEIFTQP
INLKNITTIQQRFTQPANQPESVKHLYPQHKNL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g3382.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 253 | 273 | - |
| 2 | g3382.t2 | PANTHER | PTHR13034 | DYNACTIN P62 SUBUNIT | 5 | 273 | 3.8E-66 |
| 1 | g3382.t2 | Pfam | PF05502 | Dynactin p62 family | 20 | 136 | 5.7E-14 |
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 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.
