BtaINT0031239 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010230 | CAPN1
Description
Bos taurus calpain 1, (mu/I) large subunit (CAPN1), mRNA. [Source:RefSeq mRNA;Acc:NM_174259]
Coordinates
chr29:44086379-44087460:+
Coord C1 exon
chr29:44086379-44086436
Coord A exon
chr29:44086437-44087395
Coord C2 exon
chr29:44087396-44087460
Length
959 bp
Sequences
Splice sites
5' ss Seq
AACGTGAGC
5' ss Score
6.06
3' ss Seq
GAGACTGGTCTTTCTTGCAGACA
3' ss Score
7.68
Exon sequences
Seq C1 exon
GACATGGAGATCAGCGTCAAGGAGCTGCGGACCATCCTCAACAGGATCATCAGCAAAC
Seq A exon
GTGAGCGTCCCTGGGTAGCTGTTCTCCACCCCGTGTCTGCCTCCACGCCCCCAGCCCCCATTCCTCCAGACTCCAGGATCTAGGCTTCTCCCACCCTGGGCTGAACCCAACCCCTCGGTCTTTGAGGGCGGGCACCCTCCACTGCCTTTCAGAGTCCTGCTCACCCCGCTTTTTCCTCTTAAATTCCTCTTGCCAGACCCCATTCTCTGTGCCTGAGCTCCAGGCCCTGGTGTGATTAGGAACTTAGCTGGGGAGTGGGCCAGTGGTTAAGGATCCACCTTTGATCCCTGGCCAAGGGGCAGCAAAGCCCTTGCGCTACAACTGGAGAGTCCATGTGCTGCAAGGAGGATCCTGCGTGCCGCAACCAAGACCCGACGCAGCCAAATAAATAAATAGATGGATATTTCAAAAAAGAAGCAGCTTAGCTAGCTGAGGGCACCTTAGGGCCAGTGTGCCAGCCCCCTTCGTCCCAGAAGGCGGGTGACAGGTGACGGGCTTCACTCCCCGTTGGGTACAACTGAAGGCAGCTGCCTTTTAGCCTTCCCTTTGCCCCCGCCTCTGACCTCTGACCTCCAACCTGTGCCCATGCTTTTCCCTCAGCCCAGAGCCCCTCTCCTGCTCTTCTCACCCTTCGGGACCTGAGGCAGCCCCTAGCCCTGCCGTGACCCCCTTCCCTGCATGTTTCTACTGCACTTCCTTCCCTTCTGTCCAGCACCGGTCCTTTTTACTCACATCTAATCGTGGTGTTGACGTGGCTGTTGGGTCAGCGGCTTGATTACTAGAATACTTTAAACTTTTTCTGATGATAAAAACAATCCTACGCACCTCCTCAGCTAGATTTTAGATACCAGCGGACAGCAATGGTGCCTCCCTGCCCCTCTTCCCACCCAGTGCACCCAGCACGGGGCAGTCTGGGGACACTGGTCGGGTTGAGGTGTTGAGACTGGTCTTTCTTGCAG
Seq C2 exon
ACAAAGACCTGCGGACCACGGGCTTCAGCCTGGAGTCCTGCCGCAGCATGGTCAACCTCATGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010230:ENSBTAT00000011678:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138331=EF-hand_8=FE(31.1=100)
A:
NA
C2:
PF138331=EF-hand_8=FE(34.4=100)
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:
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]