BtaINT0031386 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008868 | CAPN3
Description
Bos taurus calpain 3, (p94) (CAPN3), mRNA. [Source:RefSeq mRNA;Acc:NM_174260]
Coordinates
chr10:37884809-37885860:+
Coord C1 exon
chr10:37884809-37884867
Coord A exon
chr10:37884868-37885200
Coord C2 exon
chr10:37885201-37885860
Length
333 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAG
5' ss Score
8.27
3' ss Seq
CTTGGGACTTCCTCTTGCAGTGG
3' ss Score
8
Exon sequences
Seq C1 exon
GAGCTTTCAATGCATTTGACAAGGATGGGGACGGTATCATCAAACTCAATGTTCTCGAG
Seq A exon
GTAAAGCCTAACAGTACACTCCCCCCGCACTTTAAAATTTGAGGTGGAGGGATGGGATTGGATGGGATGGGAAAGGAACATAAAGGGAAGCTCAGAGCTCAGCAGGATGTGGTCATGGGGAACGCATAGTGGGGGAAGGCTCTAAGGAAGCCTCAGTTATGGCTTTATGCTGGAAAATCTGTACTTTCTAGGGGAGATCTGTGGGAAGGATGCTTCTCAGGAAATCTTCCGTGTCTGGCATGCTGGGACTGGCCTTTTCTTCTACGTTTTAGATATGTAGGGCTTGGCTCTTTTGTCTCATGTGCATTCTGATCTTGGGACTTCCTCTTGCAG
Seq C2 exon
TGGCTGCAGCTCACCATGTATGCCTGAACCAAGCTGGCCACATCGAAGGCATGGAGGATCACTCAGGATTTCAATTTCACCCAACAGAGCTAGTCACTTACCTCAAAGGACACAGTTGCTGCACCCCCAGGAAGCCTCCAGGCACCTCATCAGTCTAGTTCCTCCTCTACTCACTTCCCTCCCAGCCTTAGGGCATCTGTCCATTTGTCAGGCCCAGCCTGACCCTTCAGTTAAGGAATGGGGAAGGGAGAGCTGTGTTGTCCCTGTGCCACATGGAGCCAAGTGCCTCTGTCTGCTTCCGCTAGCCACAGGCCAGTGAGAGCTTTGCTTGGAGTCTGATGGCCTCAGCTCTGAAGACAAGTACTCTCCTTAGATGCTTGCAGCTGTTTGCAGAAGCATTTGCCAATGGCACTCAGTGCTTCCTGGTGCTAGATCCCCCCACCCCGTGTCCCTCCCCCCCCCCCATTATCTCTGTGTTCTCCCACCCATGGGACAACAACAAAATGAGCACTTGGTTCTGCCTGACTGTTTCAGGACGGGCCTGCTCTGGAGTAAACTAGTTCAGTGAAAAGAGGTTTGGACATTTTGGGTTATCTAACTCATAAGTTAGGTTGCATTCTGAAAAAATGTTCATCTCAATAAAGGCATATGTTTTGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008868:ENSBTAT00000011677:23
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:
PF134991=EF-hand_7=FE(20.0=100)
A:
NA
C2:
PF134991=EF-hand_7=PD(3.2=33.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGACAAGGATGGGGACGGTA
R:
GAAGCAGACAGAGGCACTTGG
Band lengths:
343-676
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development