BtaINT0031336 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015865 | CAPN14
Description
Bos taurus calpain 14 (CAPN14), mRNA. [Source:RefSeq mRNA;Acc:NM_001192425]
Coordinates
chr11:68690751-68691478:+
Coord C1 exon
chr11:68690751-68690887
Coord A exon
chr11:68690888-68691303
Coord C2 exon
chr11:68691304-68691478
Length
416 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGA
5' ss Score
5.17
3' ss Seq
TCTGTTCCTTTCCTGGGCAGGCT
3' ss Score
9.78
Exon sequences
Seq C1 exon
TTCTGGCACTTTGGAAAGTGGGTTCCGATTGTGGTAGATGACCGACTACCTGTGAATGAAGCTGGCCAGCTGGTCTTTGTCTCTTCTACCTACAAGAACTTGTTCTGGGGAGCTCTTCTGGAAAAGGCCTATGCTAA
Seq A exon
GTAAGACAACCGCACAAACCTTTCCCCTTTCCTTCCTGGCCCTTCCCTCCTCCTCTGTCTCTGTCTCTCTCTCATCAACATTGAAGGAGGGCAAGAGGAGGCAGGGGAAGTTTATCAAGTGAGATACTGAGGCCTAGCTCAGCAAATACAGAAGTGACACATCCAGGGTCTCTTATGTAAGGGTCACCCCACTGGAACAACCTTTCTGGAGTCTTACCTTTCCCTGATGGATGGACTTGTGCAGTAGGAATAGAAACTGAGTATATATTTCTTTTTTACCCCTGGGATGGGAGGAAGGGATAGCAGACACATGCCCTGGGAATAACCAAGCAGGGGGTTCTTTAGACTTGTTTGGACTGTCCTGTGTACAGTAGAAACACTCTTTCTTCTCTCACATCTGTTCCTTTCCTGGGCAG
Seq C2 exon
GCTCTCTGGCTCCTATGAAGACTTGCAGCGTGGACAGGTGTCTGAAGCCCTTGTGGACTTCACTGGAGGGGTGACAATGACCATCAAGCTGTCAGAAGCCCCTGACAGCCTCTGGGATGTCCTAACCCGAGCCATGTACAGCAGAACCCTGATTGGCTGCCAGACCCACTGTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015865:ENSBTAT00000021091:5
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(15.3=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(19.7=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:
AAAGTGGGTTCCGATTGTGGT
R:
GTCTGGCAGCCAATCAGGG
Band lengths:
288-704
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development