DreINT0005743 @ danRer10
Intron Retention
Gene
ENSDARG00000055338 | CAPN1 (2 of 2)
Description
calpain 1, (mu/I) large subunit [Source:HGNC Symbol;Acc:HGNC:1476]
Coordinates
chr21:27447547-27449448:-
Coord C1 exon
chr21:27449383-27449448
Coord A exon
chr21:27447605-27449382
Coord C2 exon
chr21:27447547-27447604
Length
1778 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGA
5' ss Score
10.1
3' ss Seq
TTGTTTGCTCTGATCTACAGGAA
3' ss Score
9.18
Exon sequences
Seq C1 exon
CCCGTGCTACAGGAGAGCGACATCGACGAGGGCTTCAAGGCACTTTTTGCAAAGCTGGCAGGGCCG
Seq A exon
GTAAGACAGAAGACAGTGGAAAGTGTTTATCCGCTTATTAAGTCTGACGTCAAACGTCTCAATTTCTGTGTCCAAACACTTTTTGAAGCCAAAAGCGAACAAAAATGCAAATAATATAAGCTCCAAATGTGCTGTATTAAAATTGAAAATCATGATCATAATATTTATATCCATGTCTGAATCTCAGATGCTCAGAGAGTAGCTGTGTTTTCATCCACCTATTTTATGATCATTTTGGAATACTGATTTAAGAAAAATTTTTAATGGAAACGCCAAGTTGTACATACATTATGCAGACAACGGACCCTTTCATAAGCCTGCTGTGACGCGTTTAACATTCATCATAATCTTAAATCCTTAAAAGTTTTATTGTTCTGATTTTATTTAAAGCATATTTATTTAAATGCATTTTGTATGTACTATATCATCTTTGTGTCAAATTAGAAAAGACAAATTACTGCTTATGGGAGGTGTTCTGATGCAGCGTCTAGAGTAAATTTGAGGTTATTCTCTCCTCTGGTTGCCGTTATCAGTCTCACGCTATTTCATCCTTTTTTCTAAAGGTCTTGATAACATCATTGTGGAGTTTTTCTTTTAATATTTCAGCAAATAGGATTGTGAAAAAATTGATTTGTTGTACTCTCTCATTTACTGCGCTCTAAGTTTACCCAACTATGACGTCTTTCGCTCCTGAGAAACCTGGAAATGTAAAAAGAGTCTACTAAGTAGGATAAACTTTCATTTAATAAGAAAAAAAAAATGTACTACAATGGAGACACATTTACTAGTAAATAAATTCCAGTATGAGCATTAAAAAAAGTGATTTTGTTATAAGAGATAACTTGTGACAGCGTTAATAGACAAACCAGTGGACTGACCACATTGCACGACATGTTGTTTTAGTCATTCTAAAAACATACAACATATTGTTATCTCCAGAACTACTACGAGGTAACGTAACTAATTTACTGTTTTTCAGTTTAGTGGATAATTCATGCAAATTCACACAAGTTCAGCTGACAAAAACGTACATTTTTGAAAAGGAGGCATGGCACCAAACCCCATTCCTAAACCCAACCGTCATTGGAGCATGAGCAAAATGTACTAAAATACGAATGCGATCGTACAAATTCATACGAATTAGCCACTAAATAAAAAAAGTTATACAAATTTGTGTTAGATAGCTTAACCCAGGGATGGGCAAACTGGATCCTCGAGGGCCGGTGTCCCTGCAGAGTTTTGTTCCAACACTAGTCAAACACACCTGAACAAACTAATCAGTGTCTTCAAGATCACTTGAACTCTATAGGGAGGTCTGTTTGAATAGGGTTGGAGCTAAACTATGCAGGACACTGGCCCTCCAGGATCAAGTTTGCCCATACCTGGCTTAACCAGAACTCTTAAGTGGCAAGTCCTTTATTATATAAGAAAAAAAGGCCCACGATGGCTTCTAATGGAGCAAATTCCTTTTTTTTTTTTTTTTTTATACATTTGGCACCAGCTTATGTCAAGTGTCTAATTTGTTCTCTTTCTCATTGGATAGAAACAGTGCTTTAATCACAAAAGTTTTATGCAATATTTCAGTTTTGTGCATAAATTGAATCCACTAATCTTTGCACAGACACACAGCTAGAGATTCATTTTTTTAGAACTAAATATATATGTATATACGCCTGTTGATTTTTCGCAATTCACATTGGGAGTCAAAGCTTGCACTCAGAAACTGTACTTTAGTTTTCTGTTATGCCCAATATTGAATTGTTTGCTCTGATCTACAG
Seq C2 exon
GAAATGGAAATCAATGTGGCAAAACTTGAGATGATTCTGAATCGGGTTGTCAGCAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055338:ENSDART00000077657:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.045 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138331=EF-hand_8=PU(0.1=0.0)
A:
NA
C2:
PF138331=EF-hand_8=FE(31.1=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:
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]