DreINT0047535 @ danRer10
Intron Retention
Gene
ENSDARG00000044776 | clic3
Description
chloride intracellular channel 3 [Source:ZFIN;Acc:ZDB-GENE-010507-2]
Coordinates
chr21:13566927-13567904:-
Coord C1 exon
chr21:13567729-13567904
Coord A exon
chr21:13567598-13567728
Coord C2 exon
chr21:13566927-13567597
Length
131 bp
Sequences
Splice sites
5' ss Seq
AAGGTCATT
5' ss Score
4.32
3' ss Seq
ATTCTTTATCGACTTTTTAGGTG
3' ss Score
8.51
Exon sequences
Seq C1 exon
TGCTGGAGAAGAAGTTTCTAAAGAGCTTGATGAAGTTGGATCAGTACCTGTTAACTCCCCTTCCTCATGAACTGGACCAGAATCCAGAGTTATCGACGTCCACTAGACACTACCTGGACGGAAATGCACTCTCTCTTGCTGACTGCAACCTGCTTCCAAAACTACACATCGTCAAG
Seq A exon
GTCATTTTTCCCACCCCTTAGACAATAAATGCATTCAATTTGAAAATTATAGAGCTGATATAGTTAATTTTAATTACTGGTCATTAAACTTCATCTTGCTTAAAGATCTCAATTCTTTATCGACTTTTTAG
Seq C2 exon
GTGGTGTGCAAAAAGTACAGAGGTTTTGAGATTCCTGCAGAGCTAAAAGGCCTTTCAAAGTATTTGGACAAAGCATACAAGGAGGATGTTTTCCACCTGACGTGCCCCAAAGATAAGGAGATCCTTCTTGCCTACAGTTCAGTGGCCAAATATCTTAACAAGTAGAACTGGACTTCAAAGAGGGCGGAGGACAAAGAGTGTGTGGACTTTTTTTTTTTTGTGTAAATCTTTTCTTGTGTTTGCTCCAAAAACAGCCTTCAATATGTATGCTCTTAATGGGAATCATTATATATGGGTGGAGGTTGTTTTTGTTAGTTTTTCATTTAAAAACCACAACTTGTGAATATCAGATGCCTGCCCTGCTTGTTGCTGCCATTTTTAGTATTTAAAAGTGTGTCGCTTGTGTCTGTGGTTTTGATGGCTTGCGTTTGTATGATAGCCACTCGTTTAGAAACATCTGCGAATGTTGTCTTTGAAGGCCATATGAAATGAGACATGTAATTGGTTTGAAATTCTACCCCATGAGAAAAAAATAAGACAAAGCACTAGACAACTTCTACAAGGATGTTATTGATTTCAGGTGGCATTATTGTTTATAAGGATCTTCTCTTGTAACGTCCAGTGTGTATGAAACATCATGCAAACAAATAAAATTGCTATAAAAGATCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044776:ENSDART00000146717:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.102 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134101=GST_C_2=FE(42.0=100)
A:
NA
C2:
PF134101=GST_C_2=PD(16.7=41.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGACTGCAACCTGCTTCCAA
R:
CCACACACTCTTTGTCCTCCG
Band lengths:
243-374
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]