DreINT0048733 @ danRer10
Intron Retention
Gene
ENSDARG00000024032 | coch
Description
coagulation factor C homolog, cochlin (Limulus polyphemus) [Source:ZFIN;Acc:ZDB-GENE-030616-403]
Coordinates
chr17:28730263-28730463:-
Coord C1 exon
chr17:28730395-28730463
Coord A exon
chr17:28730320-28730394
Coord C2 exon
chr17:28730263-28730319
Length
75 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTA
5' ss Score
7.64
3' ss Seq
TTCCTATTTCTGTCTTGCAGCCA
3' ss Score
10.86
Exon sequences
Seq C1 exon
GAACAATTAGCTTGCCTTTGGAAGTGTCCAGCCAAACCAGCAGTTCTGCCACCGTCGCATCTGGAGCAG
Seq A exon
GTACTAAATGTTCATATAACTGAAGATATTTGACATGTGTGGGCTAAACTAAGCATTCCTATTTCTGTCTTGCAG
Seq C2 exon
CCAAGAAGCCAGTGAAAAAAATAGTGAAGAAGCCTCCTCCAGCAACAGCACACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000024032:ENSDART00000000948:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.300
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TAGCTTGCCTTTGGAAGTGTCC
R:
CTTTGTGTGCTGTTGCTGGAG
Band lengths:
119-194
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]