BtaINT0031316 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008946 | CAPN13
Description
calpain 13 [Source:HGNC Symbol;Acc:HGNC:16663]
Coordinates
chr11:69094573-69095767:+
Coord C1 exon
chr11:69094573-69094747
Coord A exon
chr11:69094748-69095692
Coord C2 exon
chr11:69095693-69095767
Length
945 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
TCTGCTTCCCTCCTTTGAAGCCC
3' ss Score
8.85
Exon sequences
Seq C1 exon
GTTTCATGGGTCCTATGCCAACCTGCACTATGGCTACCTCCCCGATGCCCTGGTGGACCTCACGGGAGGGGTGGTCACCAACATCAGCCTGCACTCATCCTCGTCTGACCTGATGACGATGGTGAAGACAGCCGCGGAGGCAGGCTCTCTGATGACCTGCAGCACCCTGGCCGGG
Seq A exon
GTGAGTGGATCAGGGATCTTGTTACACTGGTTCGAGCCTTTCCTCACCCCAGAGTGTTCAGCCACTGGCCCATTCAGTTAGTAATGGGAATGGCCAAGTGACCACCACGGAGCACTGATGCTGTGCTTTATTGACACTGCCTCATTTAATCCTCACAACGGCCCTCCATCTGAAACAGGGATCACAGAAATCACTTACAGAAGAAGAAATGGGCTCAGAGAGGCTAGGTGAAATGCCCACCATCACACAGCCAGTAAATGGCTGAGCAGGGCTTCAAATGCTGTTGTCTAATGCTGAAGCCTTTGCCCATTGCTTCCTGTGACCAGAAGCAGTGGGGTTCAGAGTGATCAGGGGAGGCCCTTTGTTCTCACTGGCTCTAAAGGCAGCACCCCAAAGGCAGCATGCCCCATTCTGAAAAGCTCGGCTGACCCTCCAAATTATCTGATTCAGTTCCAAGGCAGCCAATGCCCTATCCCTGCGGATCCTTCCTTCACCCTTTAACCAAATGGGCTTTGAGTCACACACCCCTGGTCTGAAACACCACCTGAAACCAAAATGCACTTTAAATCCCAATTCCTCACGGCCTGGAGGTGGCAGGTCTCCCCGACTCCCACAAAATGCCCAGAAGATATGTGTTGGGGTATGTCTCGTTGATAACAAGCCATTAGAGAAAAGCAAGCAGCCCAGGTCCTCAGGACCCAGTGGGCTTTTGTCTGTCATAGAGTGGTCTCCTGAGGTATGAAGTGCTGGGGCCTCAGACACCCTACAGCCTTCAAACTCCTCCTCTCTAGGAAAAAGATCCAGGAACACATGGCGTTCCAGCGTGAGTCAGTGGGAGGCTTGTCATCTAGACCCAGCTCAGCTGCTGAGTGAATTGTGCTTTTCTGGGTTTTTTCTGAAGAATGTATGAGTGTTTACTGCTTGGTCTGCTTCCCTCCTTTGAAG
Seq C2 exon
CCCACAAGCGAGTCCGTGACGATGGCAAATGGACTGGTGAGCCGGCACGCCTACACGGTGACTGGCGCTGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008946:ENSBTAT00000044473:6
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(19.4=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(8.0=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:
TCATGGGTCCTATGCCAACCT
R:
CTGCTCAGCGCCAGTCAC
Band lengths:
247-1192
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development