DreINT0041121 @ danRer10
Intron Retention
Gene
ENSDARG00000052748 | capn1b
Description
calpain 1, (mu/I) large subunit b [Source:ZFIN;Acc:ZDB-GENE-060503-491]
Coordinates
chr22:26292370-26294056:-
Coord C1 exon
chr22:26293923-26294056
Coord A exon
chr22:26292539-26293922
Coord C2 exon
chr22:26292370-26292538
Length
1384 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGG
5' ss Score
5.07
3' ss Seq
ACATGTTTATGTGCCTGTAGGCT
3' ss Score
7.98
Exon sequences
Seq C1 exon
TTCTGGCAGTTTGGCGAGTGGGTAGACATTGTAATCGATGACCGCTTGCCTGTGAAGGATAAAGAGCTGATGTTTGTTCACTCAGCAGAGGGAAATGAGTTCTGGAGCGCCCTGCTGGAGAAGGCATATGCTAA
Seq A exon
GTAAGGCCTTTTTCTTCTCTCTTCTTTATCTGTATGACGATTATAGGCTCATTCAAAATTGCCTTCTACTCAGTAGGTACTACATCTGAATTTGAATTTACTACATGAACGTTAGAAAAGTACATGCTATATAGTATGAATTCGAGTTGTTGTTGGAACTCGAATGTACTACATCTGCCACTTTTTCAAGTTCACGTGACCTATCCTGGTTAGTTGCGTCGTGTGGGGGAAAAGGATTTATATATGTTACTTTTATGTCCTTATTTTTTATTGAATAAAGAGTTTAGACTTACAAAAAATTTATCAAACTTTTTCTCTTGTATGATACCATATATTAACCAAACATACTTCTTCTTTCTTACTGTGTTATATAATTGTAATGTAATGTAATGTAATGTAATGTGTATTTTTATAGCGCATTTATTGTGTATGGCCATACACCCAAAGTGCTTCACAATCATGAGGGGGGTCTCTCCACACCACCACCAGTGTGCAGCATCCACTTGGATGATGCGACGGCAGCCACAGGACAACGGCGCCAGTGCGCTCACCACACACCAGCTATTGGTGAAGTGGAGAGACAGTGATAGAGCCAATTCGGTGGAAGGGGATGATTGGGAGGCCATGATCGTAAGGGCCGATAGAGGGACTTTTGGCCAGGACACATACTACTTAGAAAGAACTGCTGACTAAAGGAAAATAGCAGAATAATAATAAATGTAGTGTGGGGGGCCTTTTGCCAGACTTCTGTCTGACAAAAAAATGTAGGCATGTCACAAGGAGTTGGATGCTTGTAGAAGTTGTAAAATATATTGAACTGTTCAGTTCTGGTATGCAGAAAAGGGTTGCAGAAAGAGGAAGTATGTTTGGGTGCAACAGCCAAAGGACTGCAGAATGACTGATAAGTGATGTTACACCAAAACTCCACTTGTTAATATCAGTTGTGCATATATGCTGGAGTCAGAGAAACGTAAACCAGTTGTGAACCTCCTGAATGTAATTTTTGTATTGCATTGAGATAACGTAACCCAGAGCTCTGTCCTTGAATTATAGTATCAAATAAATTACTAATATTTTTGGCAATAATTAGACAACCCTCTCCTCACCTTTTTTATTGAACATGCATGGAATTGGCTAGATATTCCAACAGTTGCCTCACTGCCATTCATGAGTTCTCCCGGATTCAGTGCATTCCATTAGATGCACACTTCAGAATCTCGCTGAAAGTAGTAGGTCATCCGGATACTTCTTGCATACTGTTTTTCAAATTCCATGAAATTAGACATAGTACTCTGCTTGCACACTGTTTTTAGCATACTATAGTATGGAAATATGCTATTTCAGACACAGCGTTAGTGATTATAACATGTTTATGTGCCTGTAG
Seq C2 exon
GCTAAATGGCTCATATGAAGCTCTGTCCGGAGGTTCCACCACCGAAGGCTTTGAGGACTTTACTGGCGGAGTTGCCGAAATGTATGAACTGCGCAGCGCTCCCAAAGACCTGCACCGCATCATTGCCAAAGCCCTGGAGAGAGGCTCACTGCTGGGCTGCTCCATTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052748:ENSDART00000105099:4
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=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(14.7=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(18.7=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:
CAGTTTGGCGAGTGGGTAGAC
R:
ATCAATGGAGCAGCCCAGCA
Band lengths:
297-1681
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]