BtaINT0031274 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021066 | CAPN11
Description
calpain 11 [Source:HGNC Symbol;Acc:HGNC:1478]
Coordinates
chr23:17808160-17809455:+
Coord C1 exon
chr23:17808160-17808229
Coord A exon
chr23:17808230-17809336
Coord C2 exon
chr23:17809337-17809455
Length
1107 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
CAGTCCTGCTGTCTTTCCAGGAG
3' ss Score
8.25
Exon sequences
Seq C1 exon
CAAATCACAAGCAATCCTCAATTCATCGTGAATGGGGTCAGCCCAACCGACATCTGCCAGGGTGTGCTCG
Seq A exon
GTGAGTGGGGAATGGGAAAGCCTGGGGTGTCTTCTTGGGCTGGGGAACTGGGACCCCAAGGCTCAGACAGCTCTTCTGTTTCCCTGCTTCTTCCCTAAGCCAGATGCCACCCCTACCTGCTGCCATCTGGGTCTGGGAATAAGCAGGGTGCTATATTAGTTATCGGGCTTTCCAGGTGGCTCAGCAGTAAAGAACCTGCCTGCAGAAGACCCAAGTTCAATCCCAGGTTGGGAAAAATCCCCTGGAGAAGGAAATGGCAACCCACTCCAGTTTTATTGCCTGGGAAATCCCATGGACAGAGGAGCCTGGTAGGCTACAGACCATGGGGTCACAGAGTCCAACATGACTTAGCAACTGAACAGCAACATATTAGTTATTAATTGCTCCAAGACTCAGTGACTTAAAGCAACAACAAACATCTATCATCTCACAGTTTCTCCGGGGCAGGAATTAGGAAGCAATAGAGCTGGGTGGGTCTGGCTCAGGGTCTCTCACGAGGTTTCACGGGAGCTGGAGGGTCCCCTTCCAAGATGGCACGCTCATGTGGCAGAAGGCCTCGGGTCCTTGCCATGTAGCTTCTCTGTAGGACACTCGAGCGTCCCCATATGGTAGCTGGCATCCCCCAGAGTGAGTGGCCTGAGACAGAACAAGGAGGAGGTTAGACTGACTTCACCAGCTGGTCTCAGGAGAAACAGGCGGTGACCTCCCCAGGTTCTGCTGTTAAAAGCAAACGAACCTGCAGGGACTTCCCTGGTGGTCCAGTGGTTAAGACTCTGTGATTCTCCTGTAGAGGGGCATGGGTTCGATCCCTGGTCCAGAAACTAAGATCTCACGTGCCACTCGGCCAGGAAAAAAAAAAAAAAGCATGCATGCATGCAATCCAAATCCCATGGAAGGAAAGGGGAACCAGCCTTCTGCTCTTGCGGGGAGGGTTGTAGAAGGACTTGTGGACACATTTTAAAGTCCCTGCAGGTACTCCGACTTCCTCAGTCTAAGGTATTAGGTGAAGGAGAGCTGCTCTCACGTGGGCTCTCACCACCGGTTCCCATCCTCGGCTTGGACTCTGGGGCACACACAGGGGAATGCGCAGTCCTGCTGTCTTTCCAG
Seq C2 exon
GAGACTGCTGGCTGCTGGCTGCCATTGGCTCTCTCACTGCGTACCCCAAACTGCTGTCCCGTGTGGTGCCCAAGGGGCAGAGCTTCAAGAAGAACTATGCTGGCATCTTCCATTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021066:ENSBTAT00000004690:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.042 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(7.6=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(12.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAGCAATCCTCAATTCATCGTG
R:
CTGAAAATGGAAGATGCCAGCA
Band lengths:
183-1290
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]