Gene loci information

Transcript annotation

  • This transcript has been annotated as Dynactin subunit 4.

Parent gene

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.t4 TSS g3382.t4 24995077 24995077
chr_3 g3382 g3382.t4 isoform g3382.t4 24995119 24996682
chr_3 g3382 g3382.t4 exon g3382.t4.exon1 24995119 24995244
chr_3 g3382 g3382.t4 cds g3382.t4.CDS1 24995119 24995244
chr_3 g3382 g3382.t4 exon g3382.t4.exon2 24995307 24995753
chr_3 g3382 g3382.t4 cds g3382.t4.CDS2 24995307 24995753
chr_3 g3382 g3382.t4 exon g3382.t4.exon3 24995814 24995976
chr_3 g3382 g3382.t4 cds g3382.t4.CDS3 24995814 24995976
chr_3 g3382 g3382.t4 exon g3382.t4.exon4 24996034 24996395
chr_3 g3382 g3382.t4 cds g3382.t4.CDS4 24996034 24996395
chr_3 g3382 g3382.t4 exon g3382.t4.exon5 24996501 24996682
chr_3 g3382 g3382.t4 cds g3382.t4.CDS5 24996501 24996680
chr_3 g3382 g3382.t4 TTS g3382.t4 24997047 24997047

Sequences

>g3382.t4 Gene=g3382 Length=1280
ATGGAATATTTATTATCAAAAAATGTAGAATATGTCTGCGAATGTGGACTTTTAAAGCCG
CTAACTAATCTTTACTTCTGTAGACATTGCTTAAACTTAAGATGTTTCTTTTGCTGCCAT
CATGAGGTGGACTCGCATTTCTGTCGAAATTGTCTTGAAAATATTCCTTCAGGAGAGGCA
AAATTAAGGAAGAATAAATGTAATACTTGCTTTGATTGTCCTTCATGCACTTTGTCGGCT
CTCTCTGCACGAGCTACAACAATTCAAGTTCCAATGACAAAAGAAGTGAAAGAAGGTGGT
GAGGGATCTGAAATAGAAGCGAGCAGCGGTAAAATGGTTTCAAAAAAGATGTACTATTTA
GCATGTTTGGCTTGTCGTTTTTCATCGCGAGATGTAGGGATTAGTGATCAGCCATCTCAA
AATTTTTTTTGGCCTGAGCAAGAATATATGCATGCAATAAGATTCAATACAATATTGAAT
CATTATTACTCAGTTGTGCTTCATGATAAGCAGCTTAAACAGGAAGAAAGACGTCGTCGA
TCGACAAAACAGTCGAAATTCCCAAACATGACTGATCGCACTGGATTAAATGTTTCAGCT
ATAAGACGTCAAATGGGATTTGATAAAAGTGCAGCTAAACCTAAAAGTAAACCGACTGCA
ATAGCACCATCAATTGCAGAGGATGTTGATGATTTACCAGAAGAGATCTTTACTCAGCCT
ATTAATTTGAAAAATATAACAACTATTCAGCAGCGTTTTACGCAACCAGCTAATCAACCA
GAAAGTGTTAAGCATCTGTATCCACAACATAAGAATCTCTCTATTAAACGATCAATTCGA
TGTCGTCATTGCGAGCATAATGTAATCAAACCAGAATATAATCCAACATCAATTAAATAT
AGAATTCAACAATTTGCAAGCAGTCATGTGCCTGAAGTTCGTATAATAAAATGTGACCAA
TTGGTGCCAAATAAGAGTGCATTAATTACTTTAAAAATTACCAATCCAACTATGAATGAC
ATGATAATCACAATTATGGATCTTCCAACTGAAGAAGAGGAAAAAATGATGATTGAAGAA
ATGAGAAAGAACTTTGAGAAAAACTTGAGTGTTTCGAATAAATCATCTTTAATGCGTCCA
TCATTAATTGAAGATTCAAGAATTGTGTCATGCAAGATCACTGCAAAACTTGAACTACCC
GACAGTTCATTTGTCATCAATCAACGTGATGATTCTGCGGAATTTGATGACGACGTTCAA
TCAGATAAGAAAGATCCAAA

>g3382.t4 Gene=g3382 Length=426
MEYLLSKNVEYVCECGLLKPLTNLYFCRHCLNLRCFFCCHHEVDSHFCRNCLENIPSGEA
KLRKNKCNTCFDCPSCTLSALSARATTIQVPMTKEVKEGGEGSEIEASSGKMVSKKMYYL
ACLACRFSSRDVGISDQPSQNFFWPEQEYMHAIRFNTILNHYYSVVLHDKQLKQEERRRR
STKQSKFPNMTDRTGLNVSAIRRQMGFDKSAAKPKSKPTAIAPSIAEDVDDLPEEIFTQP
INLKNITTIQQRFTQPANQPESVKHLYPQHKNLSIKRSIRCRHCEHNVIKPEYNPTSIKY
RIQQFASSHVPEVRIIKCDQLVPNKSALITLKITNPTMNDMIITIMDLPTEEEEKMMIEE
MRKNFEKNLSVSNKSSLMRPSLIEDSRIVSCKITAKLELPDSSFVINQRDDSAEFDDDVQ
SDKKDP

Protein features from InterProScan

Transcript Database ID Name Start End E.value
3 g3382.t4 PANTHER PTHR13034 DYNACTIN P62 SUBUNIT 5 422 0
1 g3382.t4 Pfam PF05502 Dynactin p62 family 20 136 0
2 g3382.t4 Pfam PF05502 Dynactin p62 family 243 320 0

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

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.

Raw TPM values