DreINT0047529 @ danRer10
Intron Retention
Gene
ENSDARG00000103340 | clic1
Description
chloride intracellular channel 1 [Source:ZFIN;Acc:ZDB-GENE-030131-3202]
Coordinates
chr19:17476877-17477984:+
Coord C1 exon
chr19:17476877-17477058
Coord A exon
chr19:17477059-17477137
Coord C2 exon
chr19:17477138-17477984
Length
79 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGA
5' ss Score
4.23
3' ss Seq
TTTATTTTCTCTATTCTCAGGTT
3' ss Score
10.12
Exon sequences
Seq C1 exon
ATCTAGAGAAGGGTTTACTAAAGGCCCTGAAAAAGTTGGATGACTATCTGAGCTCTCCTCTCCCAGACGAGATTGATGAGAACAGTGCCGATGATGTCATTTCCTCCACCCGTTCTTTTTTAGATGGACAGGAGCTTACCTTGGCTGACTGCAACCTGCTGCCCAAGCTACACATTGTCAAA
Seq A exon
GTGAGACAGACTCCCAACAGACTGCCCCTTAAATAACGTTTACAAAATAAATGCTTAGCTTTATTTTCTCTATTCTCAG
Seq C2 exon
GTTGTTTGTCTGAAGTTTCGAGGTTTCTCCATTCCTCGCTCTCTGACGTCTCTGTGGCGATATCTGGATGCAGCATATGCCAGAGAGGAGTTCTCATCCACCTGTCCCAGTGATGAGGAGATATATGTGGCCTACTCTTCTGTTGTGAAGGCGCTTAAATAGAGGAAGGGCATTCCTAGTCACGCTCTCATGTGTGTTATTACCAATTATCCTTCCAGATTACCCTAGTGTTTCATGTTACTGTCTCAAGCTTGAGGTTGTTTGCACCAGCAGGGTCCCAATGTTTCACTTTTAAACTAATTATGGTCAAATGTTTTATATTTTTAAAAACTTCTGAACCGCAGAGGTCAAAGTCATTTCTATTGTTATTCACATTGGTTGCCTGCAGTTTTAGTGGTAACAAGAATAAATATTATTTTATTTTTCAGTATTTTTATATTGCTTACTGTGAACTGCTCTTCACAGATAAAGACCTGTCTTTACATTCATCTTGACCTCCAAGTTTGTTACACTATGTAAAAGAGAAAACCAGTAACAGTAGCAAGCAATCTTTTGTTGATGTATTTTTTTCATATACAGTATCAAGAAAACATTATAGTTTGTAATGAAGGACTTCAATTCATTGGTGTTCAATCTTAGCTTCATAGCACTTAATGAAATTCGCTCATGTTGTTGCTGACTGCTTCTAAAATTACCTTCAAAAAATATTCATATTAAGTCATGCAGTATACCAAGTCTTATGCCCTTGCACCTCATTTTACACTTCTCACTTCTCTAACCACCTTATGCTTATACAATATGTAATTCAATGATACAATTTCTAATAAAGATTAAGTGAAAACATAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000103340:ENSDART00000158935:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.033 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134101=GST_C_2=FE(66.7=100)
A:
NA
C2:
PF134101=GST_C_2=PD(25.6=42.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAGCTCTCCTCTCCCAGAC
R:
CGTCAGAGAGCGAGGAATGGA
Band lengths:
183-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]