DreINT0131723 @ danRer10
Intron Retention
Gene
ENSDARG00000016611 | scrn3
Description
secernin 3 [Source:ZFIN;Acc:ZDB-GENE-030131-4783]
Coordinates
chr9:2522078-2522677:-
Coord C1 exon
chr9:2522551-2522677
Coord A exon
chr9:2522239-2522550
Coord C2 exon
chr9:2522078-2522238
Length
312 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
TTATTTATGTATTTGTTTAGATT
3' ss Score
7.65
Exon sequences
Seq C1 exon
GCGGATTCATGTCAAAGTCTGCGGCAGTTTTGTTTATGGGGAAAGGAAAAGGAAAGTAAACAGATGCTTGTTCTCTTCGAGCAGAACACAGGTTGTCTTTGTTTCTGATACATGTATATACGCTGAG
Seq A exon
GTAAATCATATTATTTAATCATATTAACTTTACCTAATGCATGCGAGTTATATGCTAATTTATTTTCGGATAACCTCTTAAAAGCTGCCATATTGGGGGTAAATAATGTTATATGCAAAGGCCTGAGTCATACTCAGAGTTTATAAATGATGTTAATGTGTTATTTTGTTTATGATTAATGATTATCGTGTACTTATTGCATAAATATTTACATTTGGCATTGTTACTGTCATTAATTTTCTGCACATGAACAGTGAATGCTAATGAGCAAAATAAATCGACCAATTAAACTTTATTTATGTATTTGTTTAG
Seq C2 exon
ATTTCAGGATGTACCCAAGGTCTTGTGACACATTTGTAGCCTTGCCGCCGTCCACTGAGGGTCAGCGGATAATCTTCGGGAAGAACTCGGACAGACCCTGCGATGAGGTTCAGGAGGTGGTCTACTTCCCTGCAAAGGAACATGAACCAGGAAAAGTTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016611:ENSDART00000016710:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.020
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping 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:
GCGGATTCATGTCAAAGTCTGC
R:
TCAACTTTTCCTGGTTCATGTTCCT
Band lengths:
287-599
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]