DreINT0048734 @ danRer10
Intron Retention
Gene
ENSDARG00000024032 | coch
Description
coagulation factor C homolog, cochlin (Limulus polyphemus) [Source:ZFIN;Acc:ZDB-GENE-030616-403]
Coordinates
chr17:28730024-28730319:-
Coord C1 exon
chr17:28730263-28730319
Coord A exon
chr17:28730172-28730262
Coord C2 exon
chr17:28730024-28730171
Length
91 bp
Sequences
Splice sites
5' ss Seq
AAGGTCTGT
5' ss Score
6.43
3' ss Seq
ATAATATTACCTTGTTCCAGATT
3' ss Score
7.54
Exon sequences
Seq C1 exon
CCAAGAAGCCAGTGAAAAAAATAGTGAAGAAGCCTCCTCCAGCAACAGCACACAAAG
Seq A exon
GTCTGTACTGGCTGATTTTCTTTTCTAAGAAACTTATTGTAAGTAGCGTGACGTGGCATGTGTGTTATTATATAATATTACCTTGTTCCAG
Seq C2 exon
ATTGTCCAGTTGATATGGCTTTGTTGCTGGATAGCAGCTACAACATCGGACAGCGGCGGTTCAACTTGCAGAAGAACTTTGTCAGTAAACTTGCAACCATGCTGAAGGTTGGGACACAAGGTCCTCATGTAGGAGTGGTGCAAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000024032:ENSDART00000000948:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.300 A=NA C2=0.120
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0009223=VWA=PU(25.4=90.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGAAGCCTCCTCCAGCAAC
R:
GGTTTGCACCACTCCTACATGA
Band lengths:
178-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]