BtaINT0138369 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000054 | SNAPC4
Description
small nuclear RNA activating complex, polypeptide 4, 190kDa [Source:HGNC Symbol;Acc:HGNC:11137]
Coordinates
chr11:103902936-103903350:-
Coord C1 exon
chr11:103903183-103903350
Coord A exon
chr11:103903062-103903182
Coord C2 exon
chr11:103902936-103903061
Length
121 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGG
5' ss Score
7.2
3' ss Seq
GCCCTGTGTGTCTGCTGCAGGAG
3' ss Score
10.58
Exon sequences
Seq C1 exon
GAGGAAGAGAGGTGGGGTGAAGCCAGCAACGACGAGGACGACCCCAAGGAGAAGGCGCTCCCTGAAGACCCGGAGACCTGCCTGCAGCTGAACATGGTCTACCAAGAGGTGGTCCGGGAGAAGCTGGCGGAGGTCAGCCTGCTGCTGGCCCAGAACCGGGAGCAGCAG
Seq A exon
GTCAGGCGGGCCTGGCCCGGGAGGTGCTGCTGCCCGGCCCCGGGGCACCGGGCCCTGGGTCCCGTCCTCCAGGGGAGCCGCTGCTGGCCGACCCACCAGCGGCCCTGTGTGTCTGCTGCAG
Seq C2 exon
GAGGAAGTCATGGGCGACCTTGTGGGCGTCAAGGGCCCCAAGGTGAAGGACGACAGGAACCCGCCCCCAAACCTGTACCTCGGACACTTCATGAAGCCCTACTTCAGGGACAGGGTCACGGGAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000054:ENSBTAT00000000060:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.714
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAAGAGAGGTGGGGTGAAG
R:
GTGTCCGAGGTACAGGTTTGG
Band lengths:
254-375
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development