DreINT0047531 @ danRer10
Intron Retention
Gene
ENSDARG00000044776 | clic3
Description
chloride intracellular channel 3 [Source:ZFIN;Acc:ZDB-GENE-010507-2]
Coordinates
chr21:13571160-13572061:-
Coord C1 exon
chr21:13571594-13572061
Coord A exon
chr21:13571270-13571593
Coord C2 exon
chr21:13571160-13571269
Length
324 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAC
5' ss Score
7.56
3' ss Seq
TTTCTAAATGTTGTCTTTAGGCA
3' ss Score
8.11
Exon sequences
Seq C1 exon
GATAAACTTGGGTAAAAACACGCTGTGACTGTACTGGAATGATGGGAGTAGGACAGAACTGAGCAGTTTGGAGAGAAACTCACTATGACTAAAGCAGCAGAGAATGAAGGAAGATACAGGTTGGACAGGTTCGGCCAGTGGGCTGGTATTCTGAACACTCAAGACCAATGGGGTGTGGTGGGAGTTAGGCTTCTCAAAGGAAATGATAGAAACTGTGGTTGGGAGAGGAAGAAGAAAAGTAGCTGCTTTTATCAGCATCGAAAAAGTTTAATTCTTCAGAGATCGACTAGACGAAGCATCAAAGCTTGAACTCGTGAGGTGAAGTGGACTCTAATAAGACTCTGAGCTGGACTGATGTAAACTGACCTCATTCTCCTGAGATCCTGGGAAACTGAGACACGGCAGAAAAAAGGAGGTATTGGAGAACCAAAGATGGCTGAAGCTGCAAAGATTGAACTTTTTGTCAAG
Seq A exon
GTACACTTTCTTGTGGTTATTTGGCTTAGTTTGATTTTTTAGAGCTTAAAAGTGTATCTGTTTTGATCTAATCTCTTTCCTCAAAATGTTTGTGCCTCCTATCATTCCTATGACATAACCATGTCTGTTGGTTGAAAACTGGTCTTGCTGAATTTACCACTAATGATAGCATCTCTAAGTTGTGTAAAGGTGAAATTATTTTAAGTAAAAAACAAATTAACAATTTCCTTCAATGTTTCAAACATTTTGAAAAAGTAGTTGCATGCTGTACTTTCAGTAAATTCTAACAGTTTTAACAGTGTGATTTCTAAATGTTGTCTTTAG
Seq C2 exon
GCAAGCGATGATGGTGAAAGTGTTGGTAACTGTCCGTTTTGTCAGCGACTCTTTATGATACTCTGGCTGAAAGGAGTCAACTTCACCCTCACCACTGTGGACATGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044776:ENSDART00000146717:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134171=GST_N_3=PU(41.1=81.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGGGGTGTGGTGGGAGTTA
R:
AGAGTCGCTGACAAAACGGAC
Band lengths:
354-678
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]