DreINT0005730 @ danRer10
Intron Retention
Gene
ENSDARG00000045199 | CAPN1 (1 of 2)
Description
calpain 1, (mu/I) large subunit [Source:HGNC Symbol;Acc:HGNC:1476]
Coordinates
chr7:6548440-6551771:-
Coord C1 exon
chr7:6551713-6551771
Coord A exon
chr7:6549175-6551712
Coord C2 exon
chr7:6548440-6549174
Length
2538 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TCTCTCTCTCTGTGTGACAGTGG
3' ss Score
8.56
Exon sequences
Seq C1 exon
AGACGTTCAAGAGTCTGGACACAGACGCTGATGGAGTCATTTCACTCACATTCTTCCAG
Seq A exon
GTAAAATCACAACGTACTGCTGTTTTACTTCACTTCTCACTTGAACATCTCTGTAGCCGCACATACGTGCAGGAGTGTGACTGTTTTAGATGAATTAAACCATTTAAATCAGGAACAATTACTATATAATAGTGTTAAGTAACAATTAAAATGTGATTAATTAGCATACATGCTAATTATTAAAAATATATAGTTCTGGTATATGAATAAAAGTGCAATAACACTGTAAACAGAGTTAGATAATATAGTAGTTATAGCCTGTAGTTAAAGGTATCTTGGAAATCTTGGCCTAAACATTGATGTAATGTTAAATTCAAAACCATGAGGTATTTGCCACCTGCGGGGTATTTAGTGATAATTAAGTGGTAATTAATTAAGGATAATTAAGTTTTGCTTTCAGAACCAGAAGCTGTAATAGCCCCGCCTTTTTCTGGAAATTTGATGGGGAAAAGCAGCACATTTGCATAGTAAAGTGCACAAAGCAAATTTTGCTTTTGGTGTAACCGTAGAGCATAGAACCACCAAGAGGCGACACTCTAGTGCGATTTGGGAAACAGCCACTAGATGGCGATAATGTCACGCGGCTGTCATTTTGGACTAAATTCTACTAGAACAACAGCATATTATAAGTCTGTAAAATAAACTCTTTAAAGTGCTGATGATTGTGATAGTAAGTGTTGTATTGTCGTCATTCAGGTTGTATCTTAGCTTTAATACGCTTTTTAAATAAATAAAAATAAATAAATAAATCAAAGCAGCTGCTTGCCATCGCGACAGCAATAAGATCCATTGGACAGCCGATCGCTTTCACTCTACAATGGCAGAATCACGAGGCTACTGCTGGGCGCTGCTGTTGCAATGGAACGTTCTATTGAGTGTCGCCTCGGTCATTCTAAGCTCTTTGGTGTTACTGTGCCACAAGCCATAAAAGTCCCGTCCTCTTCTGAAACAGGGTGTGTGGAAAATCGACTAATTTGCATTTAAAGGTGCACTAAGCAAATTTTGCTTATGGAATAACCAGTGCACAAGTTGTAAAAGCCCCGCCCTTTTTCTAGAAAGGGGGTGGGGAAAATAAACTAATTTGCATTAATGTGTACTCAGCAAATTTTGCTCATGAAATAACCAAGGCACAATCTGTAGAAGCCCCGCCCTTTCTAGAAGAAGGGGGTAGGGAAAATAAACTTATCTTTATTTAAAGGTGACATTAAAAACAAATTATGCTTTTGGTGTAAACGAGGCACAAGCTGTAAAAGCCCCACCCTTTGCTAGAAAGGGGGAGGGAAAAATGAACTAATTTGCATTTAAAGGTGCACAAAAAAAATTGATTTTGGTGTAACCGAGGCACAAGCTGTAAAGGCCTGCCCTTTGTTAAAATAGATGTGGGAAAAACAACCTAATTTGCATTTAAAGGTGCACTAAACAAATTTAGCTTTTGGTGTAACCGAGGCACTAGCTGTAGAGGCCCACAATTTTCTAGAAAGGGGGTGGGGGAACTAAACAAATTTGCATTTAAAGATGCACTAAACACATTTGATCACAAAGTAACCAAAGCACAATCTGTAAAAGCCCCGCCCTTTGGTAGAAAGAGGGTGGGGAAAATAAACAAATTTGCATTTAAAGATGCACTAAATAATTTTAGCTTTTGGTGTAACCGTGGCACAAGTTGTAAAAGCCCCGCCCTTTTCTAGAAAGAGGGTGGGGAAAATAAACAAATTTCCATTTAAAGGTGCACTAAACTAATTTAGCTTTTGGTGTAAAAAGTGCTGCCCTTTTCTAGAAAGAAAGAAACTTGCATTTAAAGGTGCAGTAAGCAAATTTTGCTCATGGAGTAACCAATGCACAAGCTGTAAAAGTCAAATTAGTTTATTTTGCCTACCCCCTTTTCCTAGCAAAGTGTGACCTTTGCTCGAAAAAGGGGGTGGGCAAAATAAACTAATTTGCATTTAAAAGGTGTTTTGCTTTTAGTGTAACCAAGGGACAAGATGTAAAAGCCCCGCCCTTTTCTATATAGCTGGGCAGGATTATGGTGAACTAAACAAATTGTCAAGTGTTGTTAATATTTGAAAGCACAAACAAATGATTGAACACACTCATGACCCCAAATGACTCCGCCCTCTTTTTTAGTATCCTTGTATAGTTACAAGACACGCCCCTTACGACTGATTGGCTGCAAGTGTATTTCTGTACTTTACTGTTTTTCAAAGATTAGGGAACTTTTAATGACACAGTTACAGCATTTAATAACCAGAAAAATCTGTGAGCTATTTGTAACGGAAACTTGATGGATATTGGCAGGACACATAGGAATTATGTTGTATTTTGTAAATAAAGAGATTGTAATATTTAAAACTGGATTCTTCTAGTTGTTATATCATCGGTGTCAATGAGCCTCAAGTCATGCTAAAGAGTTTAAACCGTCAAACATATGATTATGAGGTTTTATGATGTTCAACCTAATATGATGTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTATCTCTCTCTCTGTGTGACAG
Seq C2 exon
TGGATCACCCTGACCATGTTTGCCTGAAATGGCGTTTGTCTGCTCTGACCTTCGTTGTGCCTTCATCATTACACTTCTCCGAGAGAAACTGCCTTATTAATAAAGCCCTGTTTACAGCGTCAGTAATCACAGCACGATTACACAAACATATGGTGCCAAATGTGAGGAAAGCCAAGAAGAAACACATCGAGCTGTTCATTTACAGTGAGTTTAAAGTCACTTCTCAATCAAGCTGCATGTATTTCCATTGGACCGCCTGATGAGACACGTTTACACTCACTCAGCCAATCAGTTTTTAATCAATATTTTATGATGCATATCTTGTTTTATTGAATGTCATATCTGAATGTGTCTGCTTTATTAATGCACAGATGATGATGATGATGATGATGATGATACTGTAGATTGAAGCCAGCTTTTAATGTTTAATCAGGAAAAACTGTTCAATGTGCTGAAAAACCAAAGGATGTTTTAAACAAGCCGACTGTTTTATTCACGTCATGCACATTCCTTCAGTACCGTTTTTATTCCAGAACGTTCATATTTGGGGACAGATCATGTTTGGTTTCTTTCATTATTTCACCGCCAGACTGAACCGCACTTATCTTAAAGGAAACGTATATGAATAGGTGGTGGAGAGGATTTTAACGTCTTTATTTGTGCCAAGCAGCAGATTTTACATGATGATGTTTTTGTTCAACTTTTATTATTTGGCTTTTCAATAAACTTTCTTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045199:ENSDART00000113658:21
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(20.9=100)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
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]