BtaINT0138364 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000054 | SNAPC4
Description
small nuclear RNA activating complex, polypeptide 4, 190kDa [Source:HGNC Symbol;Acc:HGNC:11137]
Coordinates
chr11:103889947-103890721:-
Coord C1 exon
chr11:103890437-103890721
Coord A exon
chr11:103890018-103890436
Coord C2 exon
chr11:103889947-103890017
Length
419 bp
Sequences
Splice sites
5' ss Seq
GAGGTACTG
5' ss Score
7.67
3' ss Seq
ACGTGTCCGTGTCCCTGCAGCTG
3' ss Score
11.77
Exon sequences
Seq C1 exon
CAGAGCCCAGCCCGCATGCCAGAGGCCTTTCTCTCCCCAAGCAGGAGAGGCTGAGGCAGCCTCACCCGCCTGGCTCAGCCCCAGGGCTTAGCCCTGGCGGCGGCAGCAGGGACGAGGCCAGGCCCCGCGTGCAGCCACAGTGGGCCAGGACCGCGCAGCGGCGCCAGGGACACGCCCTGCAGAGGAGGCTCCTGGAGCACAAGCTTCTGACGGCCGTGAGCCCATGGGTGGGAGAGGTCGACCTGCTGTGCGCTCGCCCGAGGCCCGCCATGCGGCCACGTCGAG
Seq A exon
GTACTGCCCGGGGTGCCGGGGGTAGAGGCAGGGGGCCGGGCACCTGCCCTGGGGCCACGAGGGGGAGGAGAGGAAGGGGGCGGGGGACCTACAGGCATACCTGCCTGCCTGGGAGGGAGGGGCAGGGCCCATGCACGCAGTGTCAACCTGCAGGGGTTGCTTCCGCCTCCTCCTCTGTCTCGCTCAGCACATGGCAGCTGGCTCTGGAAGGGGCCCGAGGCTCACCCTGGCATTCCCAGTGCGCAGGCGCCCACGGGCGGGGCATACGCTCCAGGGGGCGGGAGTCTCGGGCTCAGGAGCACCCGTCCCTGGCTGCCGCCAGCCTGTCCTCAGGGCCCTCAGCCCCTTTCTGGTTGAGTGCAGCGGCCGCTGGTGTGCTGTCTCCAGGCGGCTCTATTCACGTGTCCGTGTCCCTGCAG
Seq C2 exon
CTGATGGTATCAGGAGACAGCTCCAGGGCGCCCACCTGGCCAGCACCCCAGTGTTTGCCCTCCTCATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000054:ENSBTAT00000000060:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.746 A=NA C2=0.417
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:
CAGAGGCCTTTCTCTCCCCAA
R:
AATGAGGAGGGCAAACACTGG
Band lengths:
334-753
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development