DreINT0153694 @ danRer10
Intron Retention
Gene
ENSDARG00000067673 | snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:ZFIN;Acc:ZDB-GENE-030131-5794]
Coordinates
chr5:50535198-50535514:-
Coord C1 exon
chr5:50535420-50535514
Coord A exon
chr5:50535293-50535419
Coord C2 exon
chr5:50535198-50535292
Length
127 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAA
5' ss Score
5.07
3' ss Seq
ATTTAAGATTTGTATCTTAGGTA
3' ss Score
4.68
Exon sequences
Seq C1 exon
TTGTTGCGGAACGCTGTGGCAAAGTATGGGACCAGAGAATGGGGGAGGATTAGAACGGAAGTGCCAGGCAGGACCGACAGTGCTTGTCGAGACAG
Seq A exon
GTGAAACAAATTTCAGACAGAAGTCAAACTCATGTTCCAGACCCTAAAATCATCACAACCCCTTAGTCGATCTTGCTGGTTGATTTTGGTTATTCAAGCATGTATTCATTTAAGATTTGTATCTTAG
Seq C2 exon
GTATTTGGATTGCCTTCGGGAGACTGTGAAAAAGGGAACATGGAGCTATGCAGAGATGGAATTATTAAAAGAAAAAGTTGCAAAATATGGTGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000067673:ENSDART00000141424:11
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=0.000
Domain overlap (PFAM):
C1:
PF0024926=Myb_DNA-binding=FE(66.0=100)
A:
NA
C2:
PF0024926=Myb_DNA-binding=PD(10.6=15.2),PF0024926=Myb_DNA-binding=PU(45.7=63.6)
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:
AACGCTGTGGCAAAGTATGGG
R:
CGACACCATATTTTGCAACTTTTTCT
Band lengths:
181-308
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]