GgaINT0078836 @ galGal3
Intron Retention
Gene
ENSGALG00000009360 | CAPN2
Description
NA
Coordinates
chr3:18800168-18800976:-
Coord C1 exon
chr3:18800908-18800976
Coord A exon
chr3:18800247-18800907
Coord C2 exon
chr3:18800168-18800246
Length
661 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TTGGGTTTTGTGTCCTGCAGAAA
3' ss Score
9.21
Exon sequences
Seq C1 exon
AACGATGGGAGTGGAAAACTGGGGCTGAAGGAGTTCCACACGCTCTGGACAAAGATTCAGAAATATCAG
Seq A exon
GTAAGTCATAACTTTCTCGGGGAGAACATACAATAAAAAACATGGATTGTTTTGCCTCATACAATATATAGCTATTAGAGATTTTAACTGTAAGTTTTTGCATGCAGCTCCTTTGTGCATGATGACCGCAAATTGTGTTTCATTTAAGTGAAATTGGTAAACGTTTTCCACTCTGAGGGAGATGAGGCCTCTTCCCTACTGGTGATCCTCTTAGTTTCAGAGGATCAGAGCAGACTGGAAAGGGAAACCCAAGAACAGCAGCCGAATGTATGCACTAGGCCAAGTTACTTAACGCCACGCCAGTTCTAATTGAAGCTGGTCAATTGCCTGGCAAACTCAGAGTGCAACCAAAACTCCTCTAGAGTTCTACAGAACATGAAGTAGCAGGAAAACAGCCTGGTTGGCTTGGAGTGCTTTGCTCGGAAGCCCTATGCTATCTGCTTGAGGCCACGCTGACCAGAAGTTGGGTGGCAGCCACGCATCCCAGCGCTGTGACACCATTGGGAAGGTGCACGATGTGTCTCCTGCAACCCATGTGTCCTCAGTGAAGGTTTTAGCCCTCAGCATCCACAGCTGCCAGCTTCTCTTCACCCTTTTGACTGAAGCCAAAAAGCACTCTGAACTGTTGACAAGTTTTGACTTTGGGTTTTGTGTCCTGCAG
Seq C2 exon
AAAATTTACAGGGAAATTGACGTGGATCGATCTGGAACCATGAACTCGTATGAGATGAGGAGAGCGCTGGAAGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009360:ENSGALT00000015241:17
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:
PF138331=EF-hand_8=PD(29.5=78.3),PF0175117=Toprim=FE(20.6=100),PF134991=EF-hand_7=PU(2.4=8.7)
A:
NA
C2:
PF0175117=Toprim=FE(24.3=100),PF134991=EF-hand_7=FE(30.6=100)
Main Inclusion Isoform:
NA
Other Inclusion 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]