DreINT0041126 @ danRer10
Intron Retention
Gene
ENSDARG00000052748 | capn1b
Description
calpain 1, (mu/I) large subunit b [Source:ZFIN;Acc:ZDB-GENE-060503-491]
Coordinates
chr22:26289155-26291444:-
Coord C1 exon
chr22:26291284-26291444
Coord A exon
chr22:26289325-26291283
Coord C2 exon
chr22:26289155-26289324
Length
1959 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
TTTGTTGTCTCTTTTGTAAGACA
3' ss Score
3.3
Exon sequences
Seq C1 exon
GATGTCATTTCAGGAGTTCAAACGTCAGTTTTCTCGTCTGGAGATCTGCAACCTCACTCCTGATGCTCTGAGTGATGATTCCCAACATTTCTGGAACACAATTCAGTTTAACGGCACTTGGAGGAAAGGAAGTACAGCAGGAGGCTGCAGGAACAATCCCA
Seq A exon
GTGAGTCTTAGTTTATCAGCTATGGTCTAATATATACATGAGCTGTATGCCAAACCAATCCCTATCCACTATGATTTACTGAAGAGAAATACCAAAAAAAATAACACAACTGATTAAAAGATCGCGATGACATATGATTATGTGTGCAGGTGTTGTAGTGGTGTCCTGTTTCTTAGGGCTAAATTTTGAAGCCCTTCTCCTTCGCACCCTGTTTCAAGGGCCAAAGGGAAGGGGTACAAAAATAGAATTGGGCTTGGGCCTAAGTCAGCCATTTTGTAGTGCTGTTGTAGTAAATACCTTATTTCCTTACATTTGTTGACTACTTTTTACCCACAATCCACTCTGATTTCACATGTGTATTTTCAGTGTAAACTCGCCACAACAACATTTCACAAAATACACCATGAGAAAAAGAGACAAACACTGGAGGCGGCAAATTTTATTTACAATTTCAGCCAGGATTACATCAAGAGCCAGAGAAAATAACAAATAACAGATTTAGTTTCAGATATTAGTTTGGTTTATAACGTATTAGTTTATTTGTCATTAATTTTATTGTTTAAAATGTCATCTTAGATTTATGTAAAAATTTTATGAACAAATGTAAAAATTTTATTTTTACTTTAAAATATAATTAAAAGGTAAAAAAGCAGCAAGCAAAAAGTAGGTGTTTTTTTTCCTCATTTTGTTACCGAAGAATAAAATAAATCAGACAAATAGAATGTGACATTCAGTCCATAGAGCGAAGAAATCCAAGGAAATTTTACTGGATTTTACTTGACAAAAATGTAAAGTTACTCACCATTTACTCACTCTTCATTTGTTTCAAACATATGTAAGTTTTTTTTCTTCTGTTGAGTACAATAGAAGATTTTTTGAAGAAAGCTGGAAACTGTAACCATTGACTTCCATAGCATTTGTTTTGGAAGTCATTAGCTACAGGATTTCAGCTTTCTTCAAAATATCTTTTTTTAGTATATAACAGAAAAAATAAACTTATAAAGGTTGAGCTTGACCTACTTTGACCACTTTCAAAAGTAGTCTAAAATGGATTTGACCAGTGAAAAATAAATAGATTTTACTAGTGAAGTGCCTGAAAGTGGACAGAAGAAGAAAAAAAACAGGTGTCATCTACTTGTGATAGGATTACCCAAAACAAATCTTCAACACTCATTCTGAAAAAGTAGCCCTATATACATTTCTGGAGATTGCGAATTATGCAGCCAGAACTACACATGGCTGCATTTCATCATTGAAACGAATGCTATGGGGCAGTATGAGGCAGTTCCTTTTTGTGCTTACCAGATGACCACTTACCTCTGTATGGACGGCTTTCCCGCTGTCACCAGGTTGTTCAGTAGCTCACCATGTATGTTGGTGGACCTGAGACTCGGAGAGGAGTTGACCACTAGGACAGGGTTCGAGTCAGGTAAAGAACGGTTTCAGAAAGGGTGTAAGACAGAAACAGAAGCCAACTAAACAAGTAAATAACAGGGTGAAAATGTGATCAAATCTGAAAATATGGTAAAAATCAGGCGAGGGCTTTACTTTTTCTGAATTGCTTATCAAAACACTGTGGATTGGGTTTAGGGAAGTGGGTGGATGGGTCAATATGTGCTTTTGAAAATACTATTGGTTGGGTTTAGGGAAGGAGGAGGGTGGGTCAGTCGATCGGCCAGTCAGTCAGTAAGTCAGTCAGTCGGCAGTAGCCTTTGGTGGATTTACGTGTGAACAGCAGCCACGAAGGGCACTCGTGACAGAAATTTGAGATTTTAAAAAAGCATACAAAGTGGCCTCTGGTGTATTTGTGAAAACAAAAACTGCAAAAAAACATACATGTTGGGACATATTTGGTGCTCTCCATAAATGTATATAGCGGTATGATTTCAGAATGAGCAAGGGTTGCAAATCTTAGTACGAGGTGTAAACATACGCTTTGTTTGTTGTCTCTTTTGTAAG
Seq C2 exon
ACACATTCTGGATAAACCCTCAATATAAGATCACACTACTGGAGGAAGATGATGATCCTGAGGACAATGAGGTGGCCTGCACCTTCATGGTGGCTTTGATGCAGAAGGACAGACGGCGTTTCCGCAAGCAGGGACAGGACATGCACACCATCGGCTTCGCCTTATATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052748:ENSDART00000105099:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.036 A=NA C2=0.035
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=PD(6.3=34.5),PF0106717=Calpain_III=PU(15.8=43.6)
A:
NA
C2:
PF0106717=Calpain_III=FE(36.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTCATTTCAGGAGTTCAAACGT
R:
GAAGCCGATGGTGTGCATGTC
Band lengths:
318-2277
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]