BtaINT0031244 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010230 | CAPN1
Description
Bos taurus calpain 1, (mu/I) large subunit (CAPN1), mRNA. [Source:RefSeq mRNA;Acc:NM_174259]
Coordinates
chr29:44089414-44089990:+
Coord C1 exon
chr29:44089414-44089472
Coord A exon
chr29:44089473-44089859
Coord C2 exon
chr29:44089860-44089990
Length
387 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGA
5' ss Score
6.03
3' ss Seq
ATGCCCTCTCTGCCCGGCAGTGG
3' ss Score
7.27
Exon sequences
Seq C1 exon
GGTTTTTCAAAACTCTGGACACTGATCTGGATGGAGTGGTGACCTTTGACTTGTTTAAG
Seq A exon
GTGGGATTCTCCTCTGGTCGGGTGGGGGAAGGCACTCAGGGGCAGTGGGTTTTTCTCACCCGCCCCCCACCCCGGAGGGGCTGGAGCCTGCAGCCTCAGAGTCAGCCCTGAGGCTGGCCACCTGCATCCTGCACAGACACAGCAAGGATCTCTGGTTTCTGAGGGTGGGGGCAGGAAGACCCAGGCCCCTGGAGGCCTGCACAGGAGCCGGCAGCCTGGGCTCCCAGGGGTAGAGGAGGTAAGAGTGGCCCCCTCCCCAGGAGGGTCCCTCTCCCTCCTGCCCTTGACAGAGGGAGGAGACAGCAGCCCCTGAGCCATGGAGCTGGGAGGCGGGACTTGGGGCCTCTGCCCTGGCTGACTGCTCTCTATGCCCTCTCTGCCCGGCAG
Seq C2 exon
TGGTTACAGCTGACCATGTTTGCGTGAGACGGGGGCTCAGGCCCCCTTGCTATGCTCCTCTGCCCTCCTCGTCCGCCAAGCCATGCCTTCCTGCGACGCCACACCAGGCCACACCAGCTGCAAGTGCCTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010230:ENSBTAT00000011678:20
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:
PF134991=EF-hand_7=FE(20.9=100)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAAAACTCTGGACACTGATCTGG
R:
AGGCACTTGCAGCTGGTG
Band lengths:
182-569
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]