BtaINT0138363 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000054 | SNAPC4
Description
small nuclear RNA activating complex, polypeptide 4, 190kDa [Source:HGNC Symbol;Acc:HGNC:11137]
Coordinates
chr11:103890437-103891007:-
Coord C1 exon
chr11:103890962-103891007
Coord A exon
chr11:103890722-103890961
Coord C2 exon
chr11:103890437-103890721
Length
240 bp
Sequences
Splice sites
5' ss Seq
GCGGGGGGT
5' ss Score
-1.05
3' ss Seq
GGCACATGGCAGCCCCACAGCAG
3' ss Score
-3.92
Exon sequences
Seq C1 exon
CCTGGGTGCAGGGTGCTGTGTGTGCCCAATGGCAGCCAGCTTCGCG
Seq A exon
GGGGGTGGCTGTTCAGGGCACCCCTGGGGACGGGGCCGTGGGTGCTCGGGACAGGCCTAGCTGCTGGTGCCAGCCGCAGCGCCCCAGGCCGCCAGGACCATCCTGACCCCTGCCACCCGCCTGTCTCCCCTCCCTGCCCCTCCCTGCCCCTCCTGGCCTGGGTGTCCCCCCGCCCTCTGGCTCCTGGCGTAGAGTAGAGGAGTAGAGGACAGTGCGGGCAGGCACATGGCAGCCCCACAG
Seq C2 exon
CAGAGCCCAGCCCGCATGCCAGAGGCCTTTCTCTCCCCAAGCAGGAGAGGCTGAGGCAGCCTCACCCGCCTGGCTCAGCCCCAGGGCTTAGCCCTGGCGGCGGCAGCAGGGACGAGGCCAGGCCCCGCGTGCAGCCACAGTGGGCCAGGACCGCGCAGCGGCGCCAGGGACACGCCCTGCAGAGGAGGCTCCTGGAGCACAAGCTTCTGACGGCCGTGAGCCCATGGGTGGGAGAGGTCGACCTGCTGTGCGCTCGCCCGAGGCCCGCCATGCGGCCACGTCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000054:ENSBTAT00000000060:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.746
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGCAGGGTGCTGTGTG
R:
CACAGCAGGTCGACCTCTCC
Band lengths:
292-532
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development