GgaINT0079546 @ galGal3
Intron Retention
Gene
ENSGALG00000020084 | CAPN13
Description
NA
Coordinates
chr3:7793895-7795463:+
Coord C1 exon
chr3:7793895-7793962
Coord A exon
chr3:7793963-7795401
Coord C2 exon
chr3:7795402-7795463
Length
1439 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
GTATCCTTTCAGCAAAAGCAATAAAATTCCCCAGTGTTGCTCATCCTTGCCTTGAGTTATGGCTGAGCTGAGCATCCCAGTGTGAGAACCTGCAAGTAAATATTAGCCATATTCCTCAGTAAATAGCTGCCACAGCCTATATGCAGGACTTTGCTATGCATGCCCTGGCTCTGGGAGCATCTCTGCTGAAAGGTGAGAGTCGATCTCTGCGTTCATACCTTCTGTAGCAACCAATTCTTTGCTCTCATCTTCCACTCTGTGGGGCCCAGGCTTTGCTAAGCTTCACCCTCAGATGCAGGCCCCAGGCACAGCTTGGTGCAGCCACAGCAGCCCCTGATGTCAGCTCTCACAGCTTGCCAGCAGAGCTGTGGTAAGGGAAAGCACTGTCTCTGCCCAGTCACAGCCACACGTCTGAGACTGGCAGGCCATTCATCCTTCCCAATGTGCCTTCCCTATTTAGATGGATCCATAGTCTTTTTATTGTTAGCAACACTGGAAATACATTGCTGGCCATTGTAGAACAACAAGACTCCTTGATGAAAACATAAATCCTCCCTCATGTTTTTTCTCCCAGTTGCTGGCTCACTACCTCTTTCCTTCCATGCCTTGGAATAACTTTGAGACATTTTCAGATCTTTAGAAACTGACAGGGAATGAATAAAAACGCCATGCAATCCCACTGTTTCCATCTTTCTCCATCTTGCAAGCAAAAGAGGTTTTCCCCCCTTTCCAAAGCAACCCCTAGGCTAAGTGGGCACTGTGAATGCATGGCACGTGCAAGCAGCTGACAAAGCCGCGGCTCTACTTTGATTCAAGGTGGATTTCTCATTCTCTGGGCTGCATACAGCCCATGTACAGTGTGACCTATCCTGGCCTGCAAAAATGATAGCAGCTTTTTTTTTTTCAGTCATGTTTCACTTGTGGGCTCGTGTAGCTTGTAGTGAAGTATTTTCTTGCTTGCAGCATCTCCATGGCTTCTGAGAACAGGCAACAGGATCAGCTCTGTGTGCTCCTGACTCCTTCACTGCCTCTTCTCCCAGAAGGATCCAGCCAGAGCTGATCTCATGCTGTCCCATGCACAAAAGCACATATGGGCTGGAGCATGAGGTTCTACTCCTCCTCAGTGGCTGCTGTGCTCAGGGGCTCAGTGTCAGCTGCAGAGATTGCTACGGGAACCCTTGTGGTTAATGACATCATAGAAATAGAAACCTTTTGTTGTTTGTGAGCATAGATATGAGCAGCTGCACAAATTGCCAGAAGAGGCAAATTTAACTCTGAGCGTAACTGGGACCAGAAAAGATCTCGTCCTTCTAAACACAAAGCAGCAAACAGAAAAGGCTGCATCCCAAGGCTCCCTTTACATGAAGGCAGCATCCTCAGCAATGAAGGCATCGCCAGGTTTAGCTCGTTAACTGCTTGGTTCTTAACTAAATGCACAG
Seq C2 exon
CTCAATTCAAATGGACAACTCACACTGCAGGAGTTTGGGAGCCTCTGGCGAAGTGTCACCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020084:ENSGALT00000014759:22
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=85.7),PF134991=EF-hand_7=PU(0.1=0.0)
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]