BtaINT0040556 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021844 | COCH
Description
Bos taurus coagulation factor C homolog, cochlin (Limulus polyphemus) (COCH), mRNA. [Source:RefSeq mRNA;Acc:NM_001077842]
Coordinates
chr21:41948039-41948479:+
Coord C1 exon
chr21:41948039-41948111
Coord A exon
chr21:41948112-41948418
Coord C2 exon
chr21:41948419-41948479
Length
307 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTCT
5' ss Score
1.07
3' ss Seq
GCATTCTCCGTCTCTCCCAGGTC
3' ss Score
10.21
Exon sequences
Seq C1 exon
GCCGGGCGGTTCCGACTCAGGTGCAGAGCCCCCGGCGTCCGGCGTGGGCTAGAGGGTCCCTGCCGCCAACCAG
Seq A exon
GTCTCTCTCCACTCTGTCGCTCGCAGCGTGTCTGTCTGTCTTCACAGCGCACGCTCCTCCTGGTCCGGGGTTGCACCTCGATTCTGCGTTTGGCTCGGTTTGCAGCCCGAGCGTCGCCTCCAGCTAGAGAACGGGGCACGAGCTCCCGGGCAGCGGCCTCTCCGGGCTCCCCCTTTCCTTGGCCGCCCCTGGGTTTCCGAGGAGTGGGGTGGGAGGCGGGGAAGGGGGGGGGGTATCCCGCAGGCGAGGGCGGGCGCGGTGGGGGTGGGGACGCAGGGGTCTCTGTTGCATTCTCCGTCTCTCCCAG
Seq C2 exon
GTCCGAGTAGCCCCTCTTCCACCAACCATGTGGGCATCCTGGATTCCGGTTCTCTGCCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021844:ENSBTAT00000053676:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]