BtaINT0138366 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000054 | SNAPC4
Description
small nuclear RNA activating complex, polypeptide 4, 190kDa [Source:HGNC Symbol;Acc:HGNC:11137]
Coordinates
chr11:103886603-103889438:-
Coord C1 exon
chr11:103889323-103889438
Coord A exon
chr11:103888236-103889322
Coord C2 exon
chr11:103886603-103888235
Length
1087 bp
Sequences
Splice sites
5' ss Seq
TGAGTGAGT
5' ss Score
6.51
3' ss Seq
GACACAGGGCCCGTCGCCAGACG
3' ss Score
-0.46
Exon sequences
Seq C1 exon
CTGTTCCAGATCGACGTGACTGGCTGCATGGAGGTGGTTCGAGAGAGGAAGGCCTGGCCGCCCGCCCTGCTCCAGGCTGGTGCCGGGGACCCGCTGCCCCTGCAGGTGAGGACTGA
Seq A exon
GTGAGTGCCTGGGTCCCCAGGTGCCCGCCACCCTTCCCTCCCATGCAGTGGGGGAGTGAGGCATTCCCAGGTCCCCGGAGGCTGGGCCAACGCCCGAGAGCAGCCCATGCCCATTGCTGAGAGAGTCTGCCAGTCTCCAGGGTGGGCCTGGCAAGTCCAGGGGGTGCAGGGCTCCACGGGCACTCAGGCTCGCCTGGCTCCATGGCATGTCTCTCCCTGGTGCCATACTGCCCCTGGGTAGGGGGGTGGGGGGGGCCATTAGGTGCGTGCTGCCCTGGGCACTGCCATCCTTGGGCCAGGTCCCTGAGCTTGGTCACTGCTGGAGGAAACAACAGCAGAGCATTGCTGGCCGGAGGAGCAAGCGCGGTGCTGTGGTGCCCCGTCCAGGCCTGGGGCCCCCTGCCCTCCCGCCTAAGCAGCTGGACCCCCTGCCTCTCCTTGACCCCACCGACGCGCGTGCTCCCAAGGATGCCTTGGCGTGGCCTCGCGGGACGAGGGGCCGGGCAGCCCTGCGTGTGGGGGCTAGAGGCGGCCTCGGGCGGCGTGGGGGTTGCCCTGAGGCTCTGACACCGCTCTGCTTTCTCTTCCAGGAACCCTCGAGTGCCCACAGTGCCCCAGGTACCGCTCGCCTGCCCCTCCCTTTGGGTGGTGTATGTCTAGACCTGTTCCAGGCTTTACGTTCCAGCGCCTCGTGGCGGGGGTCTCTGAATCCCACCTTGGGGTGGCCTGGCTGGCATGAGCAGTCAGCCTTTCCCAGCCTGCCGGGAGCAGGGGCCCCCTCTGGGCCCAGGCGTCGGGCGCAGCCTCTCCTTGCCTGTCCCCACGCCGGCAGGATCGGGCAGCGGTCCCGGGTCCTGGGAGGTGACCGCGGAGGGCAGGGTAACGGTGCTGGCAGTCCTCATGTGAGGGTGTTGGAGGCGCAGGTCATCAGGGCCTTTCCGCCGGGCCCGCCCTGGATGGGGCAGAGCATGGGAGCGAGGGGCGGTCTGGGGTGTGCAGGCAGATCGACAGCCCTCAGCCCGGATGCAGCCCCAGCAGCCGCCCCCGCCCCGCAGGCCCTTCCCTGGGACACAGGGCCCGTCGCCAG
Seq C2 exon
ACGCGCTTCAGCACGCCTTCCGTCCTCCCCAGGCTGCCTCACCCAGAGTGTGCCAGCCCAAGGGGCTGCAAAGCAGAGCACCTGCCCTGAGGGAGGCAGAGGGCCGCAGGCCTGCTGCACAGCATCCATGCCACGGGCAGCCGCCCCGGCTCCATGCAGACCCCGGCCCAAGCCCAAGACCGTGTCTGAGCTGCTTCGGGAGAAGCGGCTGCGGGAGGCCCGAGCCCGGAGGGCCGCGCAGGGCCCCGCCGTCCTCTCGGCCCGGGTGCTGGTCTCCACGCCCATGGTCCTCCAGCCGCTGGCCCCCCCAGGCGCCTCCGTCTCCAGAGTCGTGCTGTCTGGGCCTGGAGGCCCTCCAGTGACCAGTTCCAGTGTTTCGGGCTCCTGGGCACCAGTCAAGAATGAGAGAGCCCCGACTCTGCACGCCTTTGCCCTCAGCCCGGCCACCTCCAGGGCCCCTGGCCAGGTTCCTGCGAGCTGCCCGCTGAGTGCTCTTGGACAGTCTCAGGCCCCTGCCACGTCCCGGAAACAGGGCCTGCCTGAGGCGCCCCCGCTTCTGCCCGCAGCCCCTAGCCCCGTCCAGCTGCCTGTCCAGCCCCTCAGCCTGACGCCAGCCCTGGGCATGCCCGCGGCAGCCAGCACCCCTCTGCCCGTCACCTGGGTCCTCACGGCACAGGGGCTGCTCCCTGTACCCCTGCAGGCCATGGTGAGCCTGCCACCGCCGACAGGGGCTCCTGACCCCACGCAGCTATCAGTGATTCTGCCACCCTCGCCCACTGAGACTCGAGCCAGCCGGGGCCCCAGGCTCCCTGAGCAGAGCCGTCCTGGGCCACCGGCAGCCAGCACAGACTTGGAGCCAGAGCCTCCCTGCAGGACGGAGCCCTTGAGCAAGAGCCCCACAGAGGTGGCTGAGGCCTGTGGCCTCGCAGAACTCACCTCCCATGAGGAGGAGGCCCTGGTGTCTGGGGAGACGTCTGCACCCAGGACTCCCTCCCAGGACACACCCCTGGCCCACCACCCAGCAACTGGACCCCCCAGCTCCAGCCCGCAGCCCCTGCACGGGGCCCCAGGGGCTGCCTCAGGGCCCAGGGAGCCCCAACCTCTGGACCTGGAGGAGCCCCAACCTCTGGACCTGGAGGAGCCCCTGCTGCCCTGGCTCGGGCTGGAGAACGGACCCCTGGACTTGAGCCTCCTCTCCCAGGAGAGCGAGGTAGCCACGCAGGAGTGGCTGAGGGGGCAGCAAGGGGTGCCTGTGCCCGCCCTGGGGAGCCAGCTGGCCTACCAGCCGCCCACGCTGTGCAGCCTGCGGGCGCTGTCCGGCCTCCTGCTGCGCAAGAAGGACTTGGAGCATGGGGCCGCGGTCCTGGCACCGGGTGGGCCGGCCGGCGCCCTGCAGGCCTCGCTGGGGCGGGTGCGCGAGCGGCTTCACGACAGCCCGGCCTACCTGCTTCTGCGGGCACGCTTCCTGGCTGCCTTTACCCTGCCCGCGCTCCTGGCCACCCTATCCCCCCGTGGCGTCCCCACCACCCTATCAGCAAGCACTGGGCCTGACCCCGAGACGGACAGTGACGACTTTGACCCAGAGGAGCCGGAGCTCACCGACAGCGACGGGCAGCCCGGGGACCCTGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000054:ENSBTAT00000000060:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.296 A=NA C2=0.783
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
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:
CCCTGCAGGTGAGGACTGA
R:
GACAGCACGACTCTGGAGAC
Band lengths:
358-1445
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development