BtaINT0031273 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021066 | CAPN11
Description
calpain 11 [Source:HGNC Symbol;Acc:HGNC:1478]
Coordinates
chr23:17819822-17820479:+
Coord C1 exon
chr23:17819822-17819886
Coord A exon
chr23:17819887-17820003
Coord C2 exon
chr23:17820004-17820479
Length
117 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGT
5' ss Score
10.65
3' ss Seq
ATGTTCTTCTCACCTCACAGTGG
3' ss Score
8.96
Exon sequences
Seq C1 exon
AAACAGCGTACTTTCTAACCATGGACCCTGAGAACACTGGCCAGATTTCCCTGGACCTGAACCAG
Seq A exon
GTACGTGGAAGGGATCTCAGGCACCCCCACCCATGGCTCCGCTAACCCTTCCCTCTCCATGGACATCATGCCCCATCCCCACCTCTCCCATCTTCTGATGTTCTTCTCACCTCACAG
Seq C2 exon
TGGCTGCAGATAACCATGTGGGGTTAGAGGCACTGCAGGATCCCGACTTCCTTCCACCACCAGCACCACCACCAGCCCCCACAGGGCTACTCCCTGTGGCACTCAGCTCTGCAGCCTCTGCTGATGGAATGGACCCTGGATGCCAGGCTCACTCCATCAGCGGGCCTCCGGGCCCACCTTCCCGGGCCCACCTTCCCCACTCAAAATGTTTTTCTTTTACCCCAACCAGGCTTCCAGTGGCTGGATTTACTCCACAGTTTCCTCCCTCTCCAAGTATATTTCACTACAGGTGAAGTTACACTTTCCCCAGTGTCCCCAGCTGGGGAGGTGGTCCACGCTTTCCTCTCTGCTCAGGCTCCCCTGTTTCACGGCCCCTCCCTCCTCCCCCTCACTGGGTGTGGGGGGCATTAATATAATGACCAACACATGCCACTGGCTTCTGTGTCTCTGTGTTTCTACGTCAGGAAGAGGCTGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021066:ENSBTAT00000004690:22
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=PD(20.0=81.8)
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:
ACCATGGACCCTGAGAACACT
R:
ATTTTGAGTGGGGAAGGTGGG
Band lengths:
255-372
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]