DreINT0042347 @ danRer10
Intron Retention
Gene
ENSDARG00000004794 | ccdc146
Description
coiled-coil domain containing 146 [Source:ZFIN;Acc:ZDB-GENE-041210-217]
Coordinates
chr4:20473979-20474658:+
Coord C1 exon
chr4:20473979-20474116
Coord A exon
chr4:20474117-20474409
Coord C2 exon
chr4:20474410-20474658
Length
293 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
AGGACGTGTTTTTCTTTTAGGTG
3' ss Score
9.66
Exon sequences
Seq C1 exon
TTGGAGATACACCTGGCAGATAAAGAGGCTCAGCTCTTGGAAATGGAGCTTGTGTGTGAGCAGGTTGGACGCCTTTCCAAGCGCATCCAAATCAAAGCTGACAACAGTAATGAAGACACACTCCATCTGGCCAAGAAA
Seq A exon
GTGAGTTCACATACACATTTGCTTTGAAAACAGCACTGTTGTTTAAAATCAGCCCTTGCCAAGGTTTCCTTTAGAATTTACATAAATATAAAGTACACAAATGATGTCTCAAGACCCTGCAGACCTCAAGAACTCCAAAAAACACATTAATAAACCACAGAAAGCATATTTGTTCCAATCCAATTTTCAGCTTTACTAAACTCCAAACTGATGTGGCGTGTTAATGTAAACACAGAGGGTCAAGAAAAGCCAGCATTTGAAGCATAATCATTTAGGACGTGTTTTTCTTTTAG
Seq C2 exon
GTGAATGAACTGCAGGCTCAGATCAGAAAGCGCAGCCGTAAAATGATGGCGGTGGTAGCAGAGCTGTCCATGCGGAAAGCCGAGTGTATGGGCCTGCAGCAGGAGATGAAGGAAAAGGAACTGCAGCTGGACTTGTGTCAAAAGCATGTGGAGCAAGGTTTGCCCCCGTCAGATAGCATTGAGAACGAGTGGCTGCGTCATCTTCAAGATCAACATAGACGCCTGGCAGATGCTGAGCGAAAAGCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004794:ENSDART00000017947:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.152 A=NA C2=0.349
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGTGTGTGAGCAGGTTGGAC
R:
CTTGAAGATGACGCAGCCACT
Band lengths:
297-590
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]