BtaINT0031313 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008946 | CAPN13
Description
calpain 13 [Source:HGNC Symbol;Acc:HGNC:16663]
Coordinates
chr11:69080919-69082722:+
Coord C1 exon
chr11:69080919-69080997
Coord A exon
chr11:69080998-69082606
Coord C2 exon
chr11:69082607-69082722
Length
1609 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TACGTCCCCCTCCCCTCCAGGAG
3' ss Score
10.34
Exon sequences
Seq C1 exon
GATTTATTGAAGGGTAAATCAGAGCCTCTCTTCATCCTGGAAGGTGCGAGCAGATTTGACATCCAACAAGGAGAGGCAG
Seq A exon
GTAAGAACTCAACCTCTTTCTTCTTGGCCCTGGATGGAAGCAGGCTGCCCAAAGTCCACCTCTGAGCAGTGGTGGGTGGAGAGAAGTGCCCCCACCCAGACCCATAGAGGCCGACACCCTCAGTGTTGCTGTGGTTGGATTATTCATGCTCAGACCTTCAGCCTGCAAATCAGCTTAGCAGTGGGTGTGCAGAGCCCTTTAGGGAGAGGAATTGTCAAAGAAAAGGAGAAAATATACACAGAGTTTAGTCTGAGCACTGAGTAGAGGGAAGTAAATGTTTATTGAACTTCTGCAAGGCTTTGCTAGATACTTTGCATGAAATAGTTCATTAACCCTGCAACATCCTCATTTTATATATGCAGAAGCTAGGGGTCCAAGGGACACAATAATGTCTTTCATGTCACAAAAGCAATACATGACAGAGTTGAGTTTGAATCTAGAGCTGTGTGACTCCCTCCAACCCACTGGACAGGCACAGGGTGGAGTTGTTGCTGAGACCTGAGTGTGGCAGGAGAAGGGAGGCCCATGGGCGGTAGCAGGTGTGGCCATGCAAGACCCCTGAGCTGAACCCTAGGAGTGGGGGGCGAGACTCCTTGGGGTGGGCACGTGGACATGGAGCCCAGAGACATAGCAAAATAAGATACAACCCTTGGGACTCCCCTGGTGGTTCAGTGGTTAGGGCTCTTTGTTTCCAGCGCAGGGGGCCCAGGTTCGATTTCTGGTCAGTGAACTACATCCCACATGCCAGAACTAAGACCCAGTGCGGCCAAATAAATGAATAAGACACAACCCCTCTGACAGCAGGCTCTACGTCCTTAGAATGTCACTTTCCAGTTAATGCCCTGGCACTTGGACTTCAACTGGTGAATTTGATAGAAGCCTGCCTGGCTTGCTGTCTGTGTTGGAGAAAGTCCCCTCCAGCCAGTAGCCTCCTGACGGGAGAAGGGACCTCTCCCAGGGCATCCTTGTGGCTTCTGCACCCAGCAGCATGACTGACTTGAAAGGGCATTCAAGCCATTGTGTGAAGATGGAGAGAAGACTCAGGAGAAGAGGGTGAGCTTACTCAAAAGGGCTCACAGTGACCTTCAAGGAGAAACTCAAAGCTATGTTCCCTCAAGGGGGAAGAGGGGAGAACCTGGATATGGGCTGGAAAGGCCCCGACACCAGGAGGAACTGAGTAAATATTAGCAAAGAAAAACAGAAATCTGTTATCCCCAATATTAGAGCACACCATTTCCACTGATGCTGGCAACAAAATTTCCTGTAACTTTGGTTCTGGGCACCTTGGGCCAAACGAGAATCAGAAGGCAAGTTGGCCCATCAGCTTGGCTGGGGCTCTCCTGACTGCACTACCATCACCATCAGAGCAGCACCAACACCACCAACCCTATCACTACTCCAGCCCTACCCCCACCGCTGTCTCCATAACTACCACCATCACCTCTATCTTGTTTGGAACTGGCCCCAGTGAATCTTTCCCCCAGTTCTCCTCTCTCAGACAGGAAAAAAAAAAAGCATTATTTGGAAGGAGGTACGCCAACTCTGAGCAGTGCATGGGGTGGATGCTGTCCAAACAGCATCTCACGACTTACGTCCCCCTCCCCTCCAG
Seq C2 exon
GAGATTGCTGGTTCCTGGCAGCACTGGGGGCCTTGACACAGAGTCCACAGTATCTGCAGAAGATCCTCATAGACCAAAGCTTTTCATACCAGTATGCGGGGATTTTCCATTTTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008946:ENSBTAT00000044473:3
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:
PF0064816=Peptidase_C2=FE(8.7=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(12.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTGAAGGGTAAATCAGAGCCTCT
R:
CCGAAAATGGAAAATCCCCGC
Band lengths:
190-1799
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development