DreINT0005737 @ danRer10
Intron Retention
Gene
ENSDARG00000045199 | CAPN1 (1 of 2)
Description
calpain 1, (mu/I) large subunit [Source:HGNC Symbol;Acc:HGNC:1476]
Coordinates
chr7:6567875-6570115:-
Coord C1 exon
chr7:6570041-6570115
Coord A exon
chr7:6568036-6570040
Coord C2 exon
chr7:6567875-6568035
Length
2005 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
TGTGTGTGTCTCTCCATCAGGAT
3' ss Score
10.82
Exon sequences
Seq C1 exon
CTCTCGCGAATGGGACAATGTGGACCGCTCCGTCCGGGGCCGATTACAGAACCGCAGCGAGGACGGAGAGTTCTG
Seq A exon
GTGAGCTCAGATGCTCAATTTCAATTCTATTCATCTATATTTCTCTAGCGCATCTACAATGTAGATTGTGTCAGAGCAGCTGGACATAGAAGATTATAGTGAATAGAAACAGTGTCAGTCCAGTTTTCAGAGTTGAGGTTCAGTTTCAGTTCAGTGTTGTTTCATTTTCACTGCTGCGAGTCCAAACACTGAAGAGCAAATCCATCTGTGTTTAAGTCTGTGTGAAAGAAAAACTTTCAATGTTCATTTTACTCGTGCAAATTGTAGTTTTTTTTTTAGGTGAATTAATCTGTGCAGGTTTTGGCAATCTTTAATCAAAGTTGACCATTTACTTACATGTTTGGGGTAGCTTCACACAGTTAGATGCTTCAGCCACATTATTACCATTAGTTGGCCATGGGAAATAATGCTCCATATAAAAAAGCTCCGTCCTTATTTAGTGTTCAGTTTCAGATAGAAGTAGCCAGACGTAAAGAGGAGAATTATCAGTGTACAAAACTCCACAAAACAGCCCTATTGGAAACCACATGGCAATCCCATATCAACCAGACAGCAGCTACCAGTCATTACAGTAAAGTGCTGGCTGCAGTTCACCCAACAGCCACTGGTGTCGCTATAAACAAGAGTTTCTATATTCTACATGCTGGCCCTTTAGGGTGCTTTCTAACTTGGTTCATTTGCTTGGACCGTACCCAAGTTTGATTGTCTCCCCCTGCCACCTCCTCGGTTGGTTTGTGTTCACACTGTCTTTTTTCCTTCTGAACCCCAGTACGCTTGCGTCATCGAGCTGCTGTTTTGTTTACGGCCGTTGCTAGGTGACGGTCACGAAAGCAAGCGCCAAAATGGAAAGACTTCCGCACATTGGGGTCATTCAGCTTTTACTGAAGCTTTTGGTTTCGGACATACAGAAATTGACTTGCGTCCATCTGCCGCAAACATATTATAAACATTCAGAACATCACACAGTGTCTGCAGAAGCTGTTTTTGGAGGAGACAAGCATCACTGTATTTGCCCTGGCTCAGTCCCCTGTGTGTCACCAAGGTACGAAACGTGACACACACACACAAAAACATGAATGAACGTTATGAAAATTATAGTTTGTTGTACAGTTGGCGGCTCACTTCCTTGATTTGGTACGATTGCATTCACATCAGAAGTGAACCGTACCAGAGTTCGCATGAATCGTACCCCTGACCACCTCTTTCAGGCGGACTCGGGTACGGTTCACGGGTGCGCACCCGAGTTCAGAAGACACGTTCACACTAGCTAAACGTATCGTACTATGACGTCAAACGAACCCGGGTGCGGACCAAAAGTGCTAGTGTGAAAGCACCCTTTAAAGACTGCCTGAACCGCAAGTTGAGACTTTTATTTCAGGATGTACTTCCAATAGAAATAGAATATTAAGTAGGAGGCGGGGCTTTCTTTAGCTCATCATTCTCACATAGCACACTTAAGGCAGAGCCATAGAGAGAAAGCAATGGAGCGCAGTGGTGGCTCGTGGAGCCCAGAAGTTAGCACTTACAGCCGATTTCCTGCTGAAGACAGTTTTTTTGCACTTTTGAAAGCTACAAAGCTTCTAAAAATAAGTTTGTGCAAGTTTAAACATAATCTAACATATTTTCAATTAATTGCGAAGCAAGTTATTTGAGATTGAGTCTACATGAAATCACATGACGATCGAACATTTTGGACTTCTGATGTCGTAAGCCTCTATAACTCTTAATAGTAAGAATGTATTAACATACAGTTGCTATGGAAACCCTAAACAGGTTAATGTCAACAAAAGGACCCGCACTCCAAACACAGAATCAAATGGTCAGACTTTGATTGAAGATTATCAAAACAAACTCATTTTTTTTAGCTGACTAATTTGCACAGATTATTTGTTCACCTTAAGAATAACAATGTGAGCGAGCGAAATGAACGCTGTAAATTTTGATTTCAAACATACTGCAGTGTCTAACCGCACTTCATCACCTGTTGTGTGTGTCTCTCCATCAG
Seq C2 exon
GATGTCGTTCAGTGATTTTCTGCGCGAGTTCACCCGTTTGGAAATCTGTAACCTGACGGCGGACGCTCTCCAGGCCAGTCAGGTGAAGAAGTGGAGCACCGCCAACTATAACGGCGAGTGGAGGAGAGGAAGCACTGCAGGTGGCTGCAGGAACTATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045199:ENSDART00000113658:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(8.3=100)
A:
NA
C2:
PF0064816=Peptidase_C2=PD(6.3=34.5),PF0106717=Calpain_III=PU(15.8=43.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]