BtaINT0031294 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013239 | CAPN12
Description
Bos taurus calpain 12 (CAPN12), mRNA. [Source:RefSeq mRNA;Acc:NM_001192697]
Coordinates
chr18:48751814-48753080:-
Coord C1 exon
chr18:48752903-48753080
Coord A exon
chr18:48751889-48752902
Coord C2 exon
chr18:48751814-48751888
Length
1014 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
GTCCCCTGTCCTCTGCCCAGAGT
3' ss Score
7.14
Exon sequences
Seq C1 exon
GCTCCACGGCTCCTATGAGGTGATGCGAGGCGGCCACATGAATGAGGCTTTTGTGGACTTCACAGGGGGCGTAGGTGAGGTGCTTTACCTGAAGAAGGACACTCCAAACCCTCCGGGCATCTTCTCCATCCTGCGCCATGCCCTGGCCAAGGAGTCCCTCGTGGGGGCCACTGCCCTG
Seq A exon
GTGAGAGAGTCAGACTCCCATGACGACCGCCCCCACACCAGGATCTGAGCACAGTCATGACTAGAAGGAGGCAGTGTCCTGTGTCCTTCTCCTCTCTCCTTTCACTGTTGGCTTATTTTCTCCCACAAATATAACACGAGCCAGTCAAAAGGACATCTGTTTGCTCTCAGAACAAGTTAAGTTTCAGCCACAGCTGGATCCAGGTGCTTAGTGGATGTTGTGAATGTTTTTTTTTTTTTTAATTCCTGCTTCTGGGTTAGAGTCACTTGCAAACTTTTCTCTCAAGGGCACAAAAGTGACCCCCACAGAGGCAGGTTCCTCCTACTGCTCAGGTGGTATGTGCTTAGTTGCGCGGTCATATCTGACTCTTTGCGACACCCACGGACTGTAGCCTGCCAGGCTCTGTCCGTGGAATTTTCCAGCCAAGAATACTGGATCAGGTTGCCAGTTCCTACTCCAGGGGATGACTCGGGGGTCTAACCCGAGTCTCTGGGGTCTCCTGCATTGGCAGGCAGATTCTTTACTACTGCACCACCTGGAAGCCCATACTCAGGTGGGAGGAGGGTGAAAAAAAAGTGCCTCTTAGAAGTTCCACGAACGTTCTGTGATTGCTTTTCATGGGCTCAGTTTGGGTCATATGTCCATCTGTGACCTGATCCCATACTCATACACTGAGCCAGTCTAACTCATTCATTTGCTTAATCCTCTGCTCAGTGATTGATTGTCTTGTGCATTTCTCTGCCTCTTTTCCTCTCTGTTCTGTATTTTTCTTTCTGTTCTTGTTCTGTATCTTTCTTTGTTCCCATTTCTCTGTCTCTCTCATCTATTTTAGCCTCTTGTCTCCATCTGCCTCTCTCTCTCCCTTCTCTTGCCTTCCCTCCCCAACTCCCAGACCCTCTCGGAGTTAGGTGCTCTGGGTGACTCTTGTCTTGGTGACAGGAGGTGGCAGTGCAGAAAGGAGCAGCCACCCTCCTGTCCCCCACTGTGGTTCACTGTCCCCTGTCCTCTGCCCAG
Seq C2 exon
AGTGATCGGGGTGAATACCGGACAGAAGACGGGCTGGTGAAGGGACACGCATATTCAGTCACGGGCACACACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013239:ENSBTAT00000044705:5
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(19.7=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(8.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCACGGCTCCTATGAGGTGAT
R:
GTGTGTGCCCGTGACTGAATA
Band lengths:
247-1261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development