DreINT0041125 @ danRer10
Intron Retention
Gene
ENSDARG00000052748 | capn1b
Description
calpain 1, (mu/I) large subunit b [Source:ZFIN;Acc:ZDB-GENE-060503-491]
Coordinates
chr22:26291284-26291937:-
Coord C1 exon
chr22:26291863-26291937
Coord A exon
chr22:26291445-26291862
Coord C2 exon
chr22:26291284-26291444
Length
418 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAAT
5' ss Score
4.94
3' ss Seq
ATGACTGAATTTGTTCTCAGGAT
3' ss Score
7.17
Exon sequences
Seq C1 exon
TTCGTCCGAGTGGAATGGGATTGATCCATCGGAAAGAGAGGAACTGAACAACCACATGGAGGATGGCGAGTTTTG
Seq A exon
GTAAATCTATCTCATCCACAGATGTTTATATTGTTTACATCTTTTACTTAATCCTCTGTTAGCCCAGAGAGTCAATTATTAAAAAGAATTATTCTATAATTTTCAAATCTCGAGAATCAAGAGTTGACTCTAAAGTTTTTTCAATACTCTAGAGTAAATTAAAAGGCTTACAATGTTTAATTATCAGACTACTATTTATCCTAGAAGAGCGCTAAAGATTAGTAATGAAGATTTTGATTCATCCAAGTCACTTTGTTCACAAAGACTGTCTAGGAGTCACCAACTGATTCATTCATTAACTCTTTCTTTAGTGTACAAACAAAATTAAGACTCTCCATCAGTTCCAAAAATGAAACAATTACACATTCCTTTAAAAGTGTGAATTTCAGTTGGCATATATGACTGAATTTGTTCTCAG
Seq C2 exon
GATGTCATTTCAGGAGTTCAAACGTCAGTTTTCTCGTCTGGAGATCTGCAACCTCACTCCTGATGCTCTGAGTGATGATTCCCAACATTTCTGGAACACAATTCAGTTTAACGGCACTTGGAGGAAAGGAAGTACAGCAGGAGGCTGCAGGAACAATCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052748:ENSDART00000105099:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.462 A=NA C2=0.036
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:
CCGAGTGGAATGGGATTGATCC
R:
GGGATTGTTCCTGCAGCCTC
Band lengths:
230-648
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]