BtaINT0092721 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003600 | MGC151839
Description
Bos taurus calpain 8 (CAPN8), mRNA. [Source:RefSeq mRNA;Acc:NM_001081619]
Coordinates
chr16:27692542-27693990:-
Coord C1 exon
chr16:27693779-27693990
Coord A exon
chr16:27692579-27693778
Coord C2 exon
chr16:27692542-27692578
Length
1200 bp
Sequences
Splice sites
5' ss Seq
CCTGTGCGT
5' ss Score
4.27
3' ss Seq
TTCCTTTTTCTGTGTTTCAGGGA
3' ss Score
12.35
Exon sequences
Seq C1 exon
CTGGAGAGTCACACGGACGCGCACCTGGGCCGGGACTTCTTCCTGGGCCGCCCGCCTGCCGCCCGCTCCAGCACCTACGTCAACCTGCGCGAAGTCTCCGCGCGCGTGCAGCTGCCCCCCGGGGAGTATGTGGTGGTGCCGGCCACCTTCGAGCCCTTCCAGGACGGCGACTTCTGCCTGAGGGTGTTCTCCGAGAAGAAGGCCAAGGCCCT
Seq A exon
GTGCGTGTCCTTTCTCTGCGGGCTGGTAGCGGGGGCCGCAGAGGGACCTGGCCCCGCGAGGGTGCAGGGCGCCGTCGGTGTGTGGGACCCACCCCCAGCCTCCGGAGGAAATCTGTTGCCCCTGCAAGGGTTCTTCATTAGAGGGGCCCGCTCCTGCCCCTCCGTGTTGGTCTGTAGGACGGGGAGAGTTTTCCTTCTAAAAAGATCAAGAGAGGGCATCAATACAGCTGGGTGAAAGCATTTTCCTCCCAGCAGGGATGGGCGCCACATAGAGGAGGAGCTGGGTGAGACACTGCCTCTTCTCTTACACTTCTCTTACACGCCACACACTCATACTCTACATACACACACCACACACTCATGCACATGCTGCATGTACCATGCACACACACATCACATACACATACCACACACACATATCACACACCACACATATCCAATGCACGCACATCTCACATACACACACCACACACACATGCCACACACATCCCATGTACTGTGCACCTGCATACCAACACATTACAGACACACCACACACGCTACACACACACCATGCGCATATACACACATACCATACATACATGCAGACCGCATGTCCCTTACATATATATACCAGACATACACGCCATACACACACCTGATATACTTTTTTTACATACACACATCACATATACCACACACCTATATGCACATAGAACCACACACACACAAATACCACGTACACACACTTAACACATAGTATCGCCCCCCCATACCCCCCTCCCCTCACACACATTGCACCACATACCATGTACATGTATGCATGGACTCGTGGGTTGTGGGCTTGGTGACTCATTCCCCAGATACCATTTCAGCAGGGATTCACATAGCTGGGAAGATGATATTAGTAACTGGGAAAGGTGGGGAGAGAATTCCCCAGAAGAGTGGTCCTCCAGGGTGAACATTCTAGATTCCATGAAGGGCCCACTGAACTTGGCAGCTCTTGTCTCTCGTGAAAAACTCAGGGTGGGGTGGGAGTTGGAGACTTGAAGGGAGGGATCCTGGTTCAGTTTATGCAGTTTGGTGAAAGTAGGAACCAGGTCGTGTGTTGGGAAGCTGGTCCCTCAGCTGGGTCACAGACTTCCTGAAAGAACCTAGCCATTAGCTATATGTTTTGTTAATACTTATCCATGTTTGCTATTTCCTTTTTCTGTGTTTCAG
Seq C2 exon
GGAAATTGGGGATGTGGTAGTTGGAAACCCACATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003600:ENSBTAT00000011676:13
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=0.269
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=FE(44.3=100)
A:
NA
C2:
PF0106717=Calpain_III=PD(0.1=0.0)
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:
CCTGGGCCGGGACTTCTT
R:
TGTGGGTTTCCAACTACCACA
Band lengths:
222-1422
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development