DreINT0047532 @ danRer10
Intron Retention
Gene
ENSDARG00000044776 | clic3
Description
chloride intracellular channel 3 [Source:ZFIN;Acc:ZDB-GENE-010507-2]
Coordinates
chr21:13569183-13571269:-
Coord C1 exon
chr21:13571160-13571269
Coord A exon
chr21:13569309-13571159
Coord C2 exon
chr21:13569183-13569308
Length
1851 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
TATGTCGTCTTTCTTGCTAGAGC
3' ss Score
8.4
Exon sequences
Seq C1 exon
GCAAGCGATGATGGTGAAAGTGTTGGTAACTGTCCGTTTTGTCAGCGACTCTTTATGATACTCTGGCTGAAAGGAGTCAACTTCACCCTCACCACTGTGGACATGAAGAG
Seq A exon
GTGAGAGATGCTGACATCAGGATGGCAATACTTCTTTGGTTCACAGTGAAATCGCTACTCTCCAAATTAGCTTTGTTAATGTAAATATTGGGATCTGTAGAATGCCTTTCTTTTTATATGCAGTAAAACTCATCTATCCACAAGAGGTGTGTTGTTCACGCGGCTATTACGCGCGAAAAGTGCAATTTATCTTTGCGTTCCGCGTCTGGTGTGAACACAGCATTAAACTGGTTTTGTAATTCCTTCAGTCGTATTAGCAATTCTACAAGCAGGATTTGAACCAGTCTCTGGCTTTGGGGCATGCTTCATAATATGGTTAAGAGCATAGCTTCTATCATCAGTCACAAGTATGCTTTTTATGGTCAGGAGACTGATGTTTACCTCTACAGCTCTTAATAGCTGGCCTGTTAAACTCGCCTCTGTTAACCTCACTCCCATCTGGGTCACGGCACCATTTTTTTTTTCAATGGATGGATTCTAGATCAGATTCAAACCAGAATTTCAGGACATGAATGGATGCCAAAAGGGATGTTAATGACCATCATTTGTTTGCGTGCCTCTTAAGGCAAAGGGAATCTAATAAGGGCCATGGCACCAATTAAACCCCTCCTGCACTTGCTGTTCTAAAAGTGGGATTTGACCTGCATTGCTTGCACTGGAGGCTGACATGTTAAGAAGATGTCTAAGACAAGCTGACCTCTGTTACAATTTTTATATGTGGATAAAAATGGTCTGGCTGCAGCCTGAGTGCACGTGCATGCTCAGACAATGTGTACCCAACCCCACCCCTAAAGCTACCCCACATAGTAATGTCACTAGCTCTATTGAGTGCATGACTATTGGAGAGAGTACAACTGGAAGGGTGAAACTGTTGCCGTGACCCTGATATAAGTGAGGTTTAGGGGAATGGGTATAGTAGAAGTCTGCTTGTTATAATGTAAATATTGGGATCTGTAGAATGCCTTTTTCTTTATATGCAGTAAAAGACTGATCCCACTCATCTATCCAGAAGACGTGCTGAAAAAGTCTTAAACTGGTTTTGTAATCCCTTCAGTCATACTTGCAATTCTTCAAAGTAGGATTCGAACCAGTGTCTCTGGCTTTGGGAGTGAGGTTTAGGGGAATGGGTATACTAGAGCTGGCAAGAGCTGTGTAGGTAGACTTCCCTGGCCTCAAAAGGTGCATTAGATACCAGTCTCACTAAGCCAGACCACAGACTGACAGCTGAAGGTCTGGGAACTTTGGCCACTTTGAATGGTCAAAGATTCATTCATGAACATTTTTAAAAGCTAAAAAAAATAAGAAAATCAGTAGGACATGTTTGTAGACTAAGACTGAAATGAACAGTTTCCAGAGGGTACTGGTAAAGATTGCTTGACCCCCAGAAATAGTGTGCCATATGCATCCAACATTTAGCAACAGGTCTATTAGCGGTGTTAGGCATGACATCTAAGGCTGAGACTTATTTGCTAGTAACTCTAGAGGCAATGGTTTATAGCTTCTTTGTTAGGAAAAAGTTATTGCAAGACAAAAATACATGAGCGGAATATTTCCCTTTCTGTTGTCATTTCAGAATGAGGAAGTCCTCGTTCTAAACACTTGGTGTGCTATGAAAATGCAAATTCAGAGGTGTAAAAATGCATGTTGTTTTGAGGAAATGTGTTTTGAATGGAATTATAATTTTTTTTTTTTATGTATCAGGTTTTCTATGTTTTATAAAATGGGTTTTGCTTTTTACACTGGAAGTTATGATTTGGTATATTCAATCTACTGTAAGTACTCTGTTAATGTATACATATACAACTGTTAATGTGTAGTTTCATTATTTATTTATGTCGTCTTTCTTGCTAG
Seq C2 exon
AGCTCCAGAGGTATTAAAGGACCTGGCTCCAGGTTCTCAGCCCCCTTTCCTCATTTATAATGGAGAGGTGCGCACTGACACCAACAAGATTGAGGAGTTTCTGGAAGACACCCTTGCTCCCCCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044776:ENSDART00000146717:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.047
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PU(41.1=81.1)
A:
NA
C2:
PF134171=GST_N_3=FE(57.5=100),PF134101=GST_C_2=PU(13.8=44.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAGCGATGATGGTGAAAGTG
R:
GGAGCAAGGGTGTCTTCCAGA
Band lengths:
230-2081
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]