BtaINT0138368 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000054 | SNAPC4
Description
small nuclear RNA activating complex, polypeptide 4, 190kDa [Source:HGNC Symbol;Acc:HGNC:11137]
Coordinates
chr11:103884749-103885673:-
Coord C1 exon
chr11:103885550-103885673
Coord A exon
chr11:103885200-103885549
Coord C2 exon
chr11:103884749-103885199
Length
350 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
GGGTCCATTATCTCCCCCAGGAC
3' ss Score
6.99
Exon sequences
Seq C1 exon
GGAGCCCCGGACCCCAGCCAGGGCTCTGCCCCCTCCTGCCCAGACAGCCCTGACAACCTGGACGTGCTGCAGACACGGCGCTCGAGGCACGTCCGCAAGCGGCGGCGGCTACAGTGACCGCGGG
Seq A exon
GTGAGTGCCCGGGTGTCCCCAGCTCCCCTTGGCTGCGGTGCTGTCGTGAGGGGTCGGGCGTGGCACATGGGCCTCCCCTCGCCCACTCCCCTCCCCGGCTCTGCACCCCCGCCTTTGCTGCTGCCCTGAGGCCGGCCCCCCTGTGCCCCGGGGTCTTGGCACGGCCAGCTGTCTGCCTGGCCCTGTCCTCTTCCCATCTGTGAGGCCTGTCCCTCCCTCCATCCGGCTCTGCTTGGTGATCCATTCCTCAGACGCCCTCCCCGACAGCAGCCCCATCCTGAGGCCCAGCCATCCTCGTGGTGCCTGTCCTTCCCTGACGTTCATTCGTGTGGGTCCATTATCTCCCCCAG
Seq C2 exon
GACTTGAGCCCTTCAGGCAGGTGTAGGGTACCCCGTGACCAAGTAGGCACAGCCTGGTGGGTCTTCAAGAACTGAGACTCGAGCCCAAGAGGATATTCGCAGAAGCAAGAACTGCAGCCTCTGAGCAGCGTGGACATGTGCGGGAGGTCCTTGGTCCTGGAGTGGACAGACAAGGGTGGCACACGGGGCCCTGGGTGGGTGGTGACTGCAGAGGGGCCGCCTGCACTGGGCCTGCTCAGGCTCCAGGGTGTGTCCTCCACGTGGCCCCTCCACAGACTGCAGGCGGGCAGCACTCCTCGCTCCTCCCCGCCCGGCCCCCCAGGGCAGCACTGTGCCTTGGCCTTGCCGGCCGTGGGGCCCAGCTGGGGTCGGAGCACCCTGTCACGAGGGTCCTCGTACGTTCTAGGACTGCTCAGAGCTGGCCAGCCGATGCAGCTGACAGGCAGGGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000054:ENSBTAT00000000060:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion 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:
CAGACAGCCCTGACAACCTG
R:
TGGAGGACACACCCTGGAG
Band lengths:
343-693
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development