DreINT0179860 @ danRer10
Intron Retention
Gene
ENSDARG00000016908 | zgc:171779
Description
zgc:171779 [Source:ZFIN;Acc:ZDB-GENE-071004-38]
Coordinates
chr3:31746561-31746861:-
Coord C1 exon
chr3:31746740-31746861
Coord A exon
chr3:31746665-31746739
Coord C2 exon
chr3:31746561-31746664
Length
75 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAAG
5' ss Score
3.39
3' ss Seq
GAGGCTGTCTCTTCCTACAGACT
3' ss Score
8.47
Exon sequences
Seq C1 exon
ATGACTGAGAATGAGCTTGTCTACACCTTCAATCTTATCTTCACCCCACAAGATGCTCCAGCTAGTGCTCCTATTGCCAGGAGCAGTGGTGCAGTCGTTGGTATTCAGTGTCATTATCCAAG
Seq A exon
GTTAAGCCTTAACTTGAATGATGGATGTGCCAATTGCTTAAACTGTAGAATTAAAGAGGCTGTCTCTTCCTACAG
Seq C2 exon
ACTCATCAATGTGACCAGCAATGCCTTATTGCCCACTTGGCTCCCATATGGTGCTACCATGGTTGCAGAGGAGCTTTTGGTCTTCTCCCTCAGGATCATGACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016908:ENSDART00000076189:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010018=Zona_pellucida=FE(15.5=100)
A:
NA
C2:
PF0010018=Zona_pellucida=FE(13.6=100)
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:
CTTCACCCCACAAGATGCTCC
R:
AGGGAGAAGACCAAAAGCTCCT
Band lengths:
174-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]