Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Cytoplasmic dynein 1 intermediate chain.

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_1 g13860 g13860.t6 TSS g13860.t6 32879368 32879368
chr_1 g13860 g13860.t6 isoform g13860.t6 32879393 32884116
chr_1 g13860 g13860.t6 exon g13860.t6.exon1 32879393 32879442
chr_1 g13860 g13860.t6 exon g13860.t6.exon2 32879796 32879984
chr_1 g13860 g13860.t6 cds g13860.t6.CDS1 32879842 32879984
chr_1 g13860 g13860.t6 exon g13860.t6.exon3 32880042 32880185
chr_1 g13860 g13860.t6 cds g13860.t6.CDS2 32880042 32880185
chr_1 g13860 g13860.t6 exon g13860.t6.exon4 32880245 32880364
chr_1 g13860 g13860.t6 cds g13860.t6.CDS3 32880245 32880364
chr_1 g13860 g13860.t6 exon g13860.t6.exon5 32883462 32883638
chr_1 g13860 g13860.t6 cds g13860.t6.CDS4 32883462 32883492
chr_1 g13860 g13860.t6 exon g13860.t6.exon6 32883699 32883855
chr_1 g13860 g13860.t6 exon g13860.t6.exon7 32883927 32884116
chr_1 g13860 g13860.t6 TTS g13860.t6 NA NA

Sequences

>g13860.t6 Gene=g13860 Length=1027
GAATAACATTTTTCTTAAAATAAAATAAAGAAATTTCGCTGATCAAATTGATCAGCAAAA
CTGGATAGTCTAGATCGTCTCAAACAATTATCTAAAATGGATAGAAAGGCCGAGCTTGAA
CGCAAAAAGGCAAAATTACAAGCCTTGCGTGATGAAAAGGAAAAGAGGAGACGTGAGAAA
GAAGAAAAGGACCTGCAGGAAGCTAAGGCTGGAGCTCCTTCAGAAAAAGACACAAGAAAG
GATTTAGATGAAATGTTGTCTTCTTTAGGTGTTGCCCCAGTTTCTGAAGTTCTTTCATCA
CTTTCTTCTGTTACCTCTGTTACATCCGATCAGTCTGGTCAAACGCCAGATGCTAGCCTT
CAACCAACACTAAATGGACAAAATACGAAAGCAAAAAAACAACAAACGCTATCAGTTGTA
CAAGTGCAGGTCACTAATATTCAACCAAAGGAGAATGTTACATATACAAAGCAGACACAA
ACGACAAGTTCAGGCACTCATGATGCTTACTTTTGGGGACGCACAAGGCGATGACGAGGA
CCATTCGTTATCTCATTTGGATCATGGTGGATTTCATTCAAAATTACCTCCTGGAATTCT
CCCTCATGGTTTACCGACAGTCAAAGAAGTCGCTCCAGCAATTACACCACAAGAACAGAA
GAAAGATGATATTAAACAAGTAAAAGAACTTTCAGAAGAACAAAAGCAAATGATTATCTT
ATCAGAGGATTTTCAACGTTTTGTTTTACGCTCTGGAAGAGTTATGGAACGCGCACTGTC
AGAAACTGTTGATATTTATACAGATTATATAGGAGGTAGTGAATCTGATGAAGGACTAGA
TGAAAAGTCTCATGCTCGGTTATCATTGAATCGAATATTTTACGATGACAGATGGTCAAA
GAATCGTTGTGTTACATCATTTGATTGGTCAACCCATTTTCCTGAACTCATGGTCGCTTC
TTATCACAATAACGAAGAATTACCAAATGAACCAGATGGCGTTGTTGTTGTTTGGAATAC
AAAATTT

>g13860.t6 Gene=g13860 Length=145
MDRKAELERKKAKLQALRDEKEKRRREKEEKDLQEAKAGAPSEKDTRKDLDEMLSSLGVA
PVSEVLSSLSSVTSVTSDQSGQTPDASLQPTLNGQNTKAKKQQTLSVVQVQVTNIQPKEN
VTYTKQTQTTSSGTHDAYFWGRTRR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g13860.t6 Coils Coil Coil 4 37 -
5 g13860.t6 MobiDBLite mobidb-lite consensus disorder prediction 1 52 -
2 g13860.t6 MobiDBLite mobidb-lite consensus disorder prediction 67 103 -
3 g13860.t6 MobiDBLite mobidb-lite consensus disorder prediction 123 145 -
4 g13860.t6 MobiDBLite mobidb-lite consensus disorder prediction 123 137 -
1 g13860.t6 Pfam PF11540 Cytoplasmic dynein 1 intermediate chain 2 100 130 9.2E-12

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:0007018 microtubule-based movement BP
GO:0005868 cytoplasmic dynein 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. There were no conditions that were differentially expressed