BtaINT0138367 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000054 | SNAPC4
Description
small nuclear RNA activating complex, polypeptide 4, 190kDa [Source:HGNC Symbol;Acc:HGNC:11137]
Coordinates
chr11:103885550-103888235:-
Coord C1 exon
chr11:103886603-103888235
Coord A exon
chr11:103885674-103886602
Coord C2 exon
chr11:103885550-103885673
Length
929 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
GTCCTCTGCCTGGACTTCAGGGA
3' ss Score
5.65
Exon sequences
Seq C1 exon
ACGCGCTTCAGCACGCCTTCCGTCCTCCCCAGGCTGCCTCACCCAGAGTGTGCCAGCCCAAGGGGCTGCAAAGCAGAGCACCTGCCCTGAGGGAGGCAGAGGGCCGCAGGCCTGCTGCACAGCATCCATGCCACGGGCAGCCGCCCCGGCTCCATGCAGACCCCGGCCCAAGCCCAAGACCGTGTCTGAGCTGCTTCGGGAGAAGCGGCTGCGGGAGGCCCGAGCCCGGAGGGCCGCGCAGGGCCCCGCCGTCCTCTCGGCCCGGGTGCTGGTCTCCACGCCCATGGTCCTCCAGCCGCTGGCCCCCCCAGGCGCCTCCGTCTCCAGAGTCGTGCTGTCTGGGCCTGGAGGCCCTCCAGTGACCAGTTCCAGTGTTTCGGGCTCCTGGGCACCAGTCAAGAATGAGAGAGCCCCGACTCTGCACGCCTTTGCCCTCAGCCCGGCCACCTCCAGGGCCCCTGGCCAGGTTCCTGCGAGCTGCCCGCTGAGTGCTCTTGGACAGTCTCAGGCCCCTGCCACGTCCCGGAAACAGGGCCTGCCTGAGGCGCCCCCGCTTCTGCCCGCAGCCCCTAGCCCCGTCCAGCTGCCTGTCCAGCCCCTCAGCCTGACGCCAGCCCTGGGCATGCCCGCGGCAGCCAGCACCCCTCTGCCCGTCACCTGGGTCCTCACGGCACAGGGGCTGCTCCCTGTACCCCTGCAGGCCATGGTGAGCCTGCCACCGCCGACAGGGGCTCCTGACCCCACGCAGCTATCAGTGATTCTGCCACCCTCGCCCACTGAGACTCGAGCCAGCCGGGGCCCCAGGCTCCCTGAGCAGAGCCGTCCTGGGCCACCGGCAGCCAGCACAGACTTGGAGCCAGAGCCTCCCTGCAGGACGGAGCCCTTGAGCAAGAGCCCCACAGAGGTGGCTGAGGCCTGTGGCCTCGCAGAACTCACCTCCCATGAGGAGGAGGCCCTGGTGTCTGGGGAGACGTCTGCACCCAGGACTCCCTCCCAGGACACACCCCTGGCCCACCACCCAGCAACTGGACCCCCCAGCTCCAGCCCGCAGCCCCTGCACGGGGCCCCAGGGGCTGCCTCAGGGCCCAGGGAGCCCCAACCTCTGGACCTGGAGGAGCCCCAACCTCTGGACCTGGAGGAGCCCCTGCTGCCCTGGCTCGGGCTGGAGAACGGACCCCTGGACTTGAGCCTCCTCTCCCAGGAGAGCGAGGTAGCCACGCAGGAGTGGCTGAGGGGGCAGCAAGGGGTGCCTGTGCCCGCCCTGGGGAGCCAGCTGGCCTACCAGCCGCCCACGCTGTGCAGCCTGCGGGCGCTGTCCGGCCTCCTGCTGCGCAAGAAGGACTTGGAGCATGGGGCCGCGGTCCTGGCACCGGGTGGGCCGGCCGGCGCCCTGCAGGCCTCGCTGGGGCGGGTGCGCGAGCGGCTTCACGACAGCCCGGCCTACCTGCTTCTGCGGGCACGCTTCCTGGCTGCCTTTACCCTGCCCGCGCTCCTGGCCACCCTATCCCCCCGTGGCGTCCCCACCACCCTATCAGCAAGCACTGGGCCTGACCCCGAGACGGACAGTGACGACTTTGACCCAGAGGAGCCGGAGCTCACCGACAGCGACGGGCAGCCCGGGGACCCTGCCCAG
Seq A exon
GTAGGCTGTAGTGGGCACAGAGCCCTCGCCCACCCAGAGCAGGAGAAAGTCACAGCGCGAGGTGGCGGCTGATCTCAGGAGGAAGAGGCCATGCCACGCCGCCCATCACTTGTGGACTCCGGGCAGCAGGAACCTCACCGCCAGCATGGTGGGGTGAGGGGCCCACCGCCCCGGCCTGTGCCAGCAGGCAGTGGCCTGTGCCCATTCCCCCTGCTGCACACGCACGCCCCACCTGTGTTTTGGGGAGGTCAGTCCACGTGCCCATTTCGGCATGCCCACGTCTGCAGCCTTCTCAGCTGCAGAAGCCGGGCTGCTTTTGTTTCCAGACTAGAACCCAGATACAGACACAGGAAAGGGTCCCCTGCTACTGTGCGCCCAGGGAGTCCCTGGTCCCCTCAGGACACGGAGGGTCCTCGGGTCCCTTGCAGGCATTGATCCTCCCAGAGAACCCCGAGGAGCAGCCCGTCCTCATCATGTGGGGGTGACCACAGCAGTGAGGCTCGCTGCTGGATTTGTGGCCCCCCATGCCCCCCGCAGCTCGGCCCAGCCCACTTCCCTTCCCAGGGGCACGGCCTTAGGAGTCCGCAGGGTCTTCCAGGCTGAAGCAAAGGGCAAGCTCTGCTGGCCCCTGGATACTGAGGGTAGGAGAGCCGCTGTCCCCAGCAGCATGGGCAGCTTCCCTCAGGCCCTGCCCCCTGGCTCAGCTGGGGGAACTGTGGTATAGCAGGCTGGCTCTCGGGGGGCTTCTCAGCAGGGATCGGAGTCCCCAAGTGAGGGAGGGGTCAGCAGAAAGTCAGCCCCACGTGGCCCCAGGAAGACAGCGCCTCCCGTCCAGCCCCAGTGAGGGGACACACTCGAGGAGCTGCCCGCTCCTCGCTGCCTGTCCCTCCGGGCTGGAGGGTCACTCTCGTCCTCTGCCTGGACTTCAG
Seq C2 exon
GGAGCCCCGGACCCCAGCCAGGGCTCTGCCCCCTCCTGCCCAGACAGCCCTGACAACCTGGACGTGCTGCAGACACGGCGCTCGAGGCACGTCCGCAAGCGGCGGCGGCTACAGTGACCGCGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000054:ENSBTAT00000000060:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.783 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
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:
AGAAGGACTTGGAGCATGGGG
R:
AGGTTGTCAGGGCTGTCTGG
Band lengths:
358-1287
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development