BtaINT0031335 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015865 | CAPN14
Description
Bos taurus calpain 14 (CAPN14), mRNA. [Source:RefSeq mRNA;Acc:NM_001192425]
Coordinates
chr11:68690518-68690887:+
Coord C1 exon
chr11:68690518-68690636
Coord A exon
chr11:68690637-68690750
Coord C2 exon
chr11:68690751-68690887
Length
114 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
ATGGCCTTCTGTCCTTCCAGTTC
3' ss Score
9.81
Exon sequences
Seq C1 exon
GTGACTGCTGGTTCTTGGCGGCTTTGCAAGCTCTGAGTTTGCACCAGGACATTCTGAGTCGCGTTGTTCCCCTAAATCAGAGTTTCACGAAGAAGTATGCTGGCATCTTCCAGTTCTGG
Seq A exon
GTGAGTGTCCTCTGGGTGCCCCAGCCTGGGGGAGGCCATAGGAAAGAAGGTTCTGGAAGAGTCATATCTCTGCTCCCTGGGCTAACCATCCTCCATGGCCTTCTGTCCTTCCAG
Seq C2 exon
TTCTGGCACTTTGGAAAGTGGGTTCCGATTGTGGTAGATGACCGACTACCTGTGAATGAAGCTGGCCAGCTGGTCTTTGTCTCTTCTACCTACAAGAACTTGTTCTGGGGAGCTCTTCTGGAAAAGGCCTATGCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015865:ENSBTAT00000021091:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(13.3=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(15.3=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:
GTGACTGCTGGTTCTTGGCG
R:
GCCTTTTCCAGAAGAGCTCCC
Band lengths:
247-361
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development