GgaINT0083317 @ galGal4
Intron Retention
Gene
ENSGALG00000009069 | CAPN14
Description
calpain 14 [Source:HGNC Symbol;Acc:HGNC:16664]
Coordinates
chr3:7650983-7651243:+
Coord C1 exon
chr3:7650983-7651051
Coord A exon
chr3:7651052-7651164
Coord C2 exon
chr3:7651165-7651243
Length
113 bp
Sequences
Splice sites
5' ss Seq
TTGGTATAG
5' ss Score
0.83
3' ss Seq
TGTTTGATTGTTTCCACCAGGAG
3' ss Score
8.69
Exon sequences
Seq C1 exon
CTGAATGCCTCTGGCACACTGAGTATCCAAGAGTTCCGAGTCCTGTGGAAAAGGCTGCTTTTCTACTTG
Seq A exon
GTATAGCAATCATTTCTGTGTACCACTGCAATATTCTACTACTCACAGTCCCTTTGTTGTCCTCTGCTGTTGTTTAAATATTTGGCTTTTGTTTGTTTGATTGTTTCCACCAG
Seq C2 exon
GAGGTTTTCCAGAAAAGAGACACTAGCAGATCAGGAAAGCTTGACCTGGTAGAACTGCGTGCAGCTGTACAGGAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009069:ENSGALT00000014761:18
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(31.0=78.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCTGGCACACTGAGTATCC
R:
CTGTCTCCTGTACAGCTGCAC
Band lengths:
141-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]