GgaINT0079546 @ galGal4
Intron Retention
Gene
ENSGALG00000020084 | CAPN13
Description
calpain 13 [Source:HGNC Symbol;Acc:HGNC:16663]
Coordinates
chr3:7775667-7777240:+
Coord C1 exon
chr3:7775667-7775734
Coord A exon
chr3:7775735-7777171
Coord C2 exon
chr3:7777172-7777240
Length
1437 bp
Sequences
Splice sites
5' ss Seq
GATGTATCC
5' ss Score
1.64
3' ss Seq
GTTCTTAACTAAATGCACAGCTC
3' ss Score
2.76
Exon sequences
Seq C1 exon
ATGAAATGACCAGCGTGGGAGGAGAGTTCAGCTTTGATTCGTGTCGAGCCATTTTAGCTCTGATGGAT
Seq A exon
GTATCCTTTCAGCAAAAGCAATAAAATTCCCCAGTGTTGCTCATCCTTGCCTTGAGTTATGGCTGAGCTGAGCATCCCAGTGTGAGAACCTGCAAGTAAATATTAGCCATATTCCTCAGTAAATAGCTGCCACAGCCTATATGCAGGACTTTGCTATGCATGCCCTGGCTCTGGGAGCATCTCTGCTGAAAGGTGAGAGTCGATCTCTGCGTTCATACCTTCTGTAGCAACCAATTCTTTGCTCTCATCTTCCACTCTGTGGGGCCCAGGCTTTGCTAAGCTTCACCCTCAGATGCAGGCCCCAGGCACAGCTTGGTGCAGCCACAGCAGCCCCTGATGTCAGCTCTCACAGCTTGCCAGCAGAGCTGTGGTAAGGGAAAGCACTGTCTCTGCCCAGTCACAGCCACACGTCTGAGACTGGCAGGCCATTCATCCTTCCCAATGTGCCTTCCCTATTTAGATGGATCCATAGTCTTTTATTGTTAGCAACACTGGAAATACATTGCTGGCCATTGTAGAACAACAAGACTCCTTGATGAAAACATAAATCCTCCCTCATGTTTTTCTCCCAGTTGCTGGCTCACTACCTCTTTCCTTCCATGCCTTGGAATAACTTTGAGACATTTTCAGATCTTTAGAAACTGACAGGGAATGAATAAAAACGCCATGCAATCCCACTGTTTCCATCTTTCTCCATCTTGCAAGCAAAAGAGGTTTTCCCCCCTTTCCAAAGCAACCCCTAGGCTAAGTGGGCACTGTGAATGCATGGCACGTGCAAGCAGCTGACAAAGCCGCGACTCTACTTTGATTCAAGGTGGATTTCTCATTCTCTGGGCTGCATACAGCCCATGTACAGTGTGACCTATCCTGGCCTGCAAAAATGATAGCAGCTCTTTTTTTTTCAGTCATGTTTCACTTGTGGGCTCGTGTAGCTTGTAGTGAAGTATTTTCTTGCTTGCAGCATCTCCATGGCTTCTGAGAACAGGCAACAGGATCAGCTCTGTGTGCTCCTGACTCCTTCACTGCCTCTTCTCCCAGAAGGATCCAGCCAGAGCTGATCTCATGCTGTCCCATGCACAAAAGCACATATGGGCTGGAGCATGAGGTTCTACTCCTCCTCAGTGGCTGCTGTGCTCAGGGGCTCAGTGTCAGCTGCAGAGATTGCTACGGGAACCCTTGTGGTTAATGACATCATAGAAATAGAAACCTTTTGTTGTTTGTGAGCATAGATATGAGCAGCTGCACAAATTGCCAGAAGAGGCAAATTTAACTCTGAGCGTAACTGGGACCAGAAAAGATCTCGTCCTTCTAAACACAAAGCAGCAAACAGAAAAGGCTGCATCCCAAGGCTCCCTTTACATGAAGGCAGCATCCTCAGCAATGAAGGCATCGCCAGGTTTAGCTCGTTAACTGCTTGGTTCTTAACTAAATGCACAG
Seq C2 exon
CTCAATTCAAATGGACAACTCACACTGCAGGAGTTTGGGAGCCTCTGGCGAAGTGTCACCAAGTACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020084:ENSGALT00000014759:16
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:
PF0003627=EF-hand_1=PU(31.0=39.1)
A:
NA
C2:
PF0003627=EF-hand_1=PD(62.1=78.3),PF134991=EF-hand_7=PU(3.3=8.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
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]