BtaINT0138362 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000054 | SNAPC4
Description
small nuclear RNA activating complex, polypeptide 4, 190kDa [Source:HGNC Symbol;Acc:HGNC:11137]
Coordinates
chr11:103903183-103904484:-
Coord C1 exon
chr11:103904432-103904484
Coord A exon
chr11:103903351-103904431
Coord C2 exon
chr11:103903183-103903350
Length
1081 bp
Sequences
Splice sites
5' ss Seq
TCGGTAACC
5' ss Score
5.34
3' ss Seq
AGTTCCCCGCTTGTCTCCAGGAG
3' ss Score
6.67
Exon sequences
Seq C1 exon
ATTTGCTGCCCGACGAGGACTTGGACTCGGACGCTGCTGGCCCACTGCTCTCG
Seq A exon
GTAACCTGCGGCCTGAGGTGGTCGTGCTCGCTAAAGTGGACACACCACCCTTCCAGTGGGTCTGGGGAGGGGGTGCTTGGAACTCACCTTGGCTCTTCTGCATTATTAAAGTCTCACGGATGTTGTCAGTCAAGAGAGAAGGGGTGTCATCAGAAGTACACACGTCCCTAGAGATAACCGTCATCACAGCTGGGCGTTCACTCCTCTCGCCTTCTCTTAGCTCCTGCCGGCCGCACTGACCTCAGCCAGACATGACTCGGGGGAGGCTGAGCGTGCTGCCTGGTCCTGCCCCGTAGTCACTGCTCCATGCGTCGGGGGCAGTGGCAGCCCCAGTCGGTGCGCGCGCGCTGGAGCCGAGAGCAGCAGCTGGGAGCAGAGGGAGCGCTCGGGCCTGCCGCTCCGTGCCTGCCGTCTGTGCATCTTGTGATTTTCTGTTAGTTTGGGAAATTTTTATAATTGCTTTTTGTTTTTCCACTAAGTCGATAGACATGGATTTGCTTCCTCTTTGTAGTAGCTGGGTGGTGCCCTGATACGGACTTACTGTAGTTCCGCAGCCTTCAGACGCGCCACCTTGAGGTGGCCGTTTGGCTCAGCTTGGTTTCAGTCTTGCCGGCGCCGTGGGGCCCACGTTCCCACTCCCTGCGTCTGCCAGCAAACCTGTTGTACAGCGAGTCCGAGTTTCTCGGGAGTTTTTACTGTCGACGGTGAAAATTGCTCATTTCCTCATTCTCTCACCTGAGGTGTATTCTTAGAGATGGCGTATGAATCGGCTTTGTTTTTTAATCATTTTCTTTCTTTGTTTAAATTTGTTCATTTTTAATTGAAAGGTAATTGTTTTACAATATCGCGTTGGTTCCCATCACACATCAGCGTGTATCAGCCATACATATCAGCCATACACATGAGCCTCCCTCCCACCTCCCGTCTAAATTGGTCCGTTGTAAACTAGGAGACGTGTCCGGGCGCTGTGTGGTCCACGGTCAGGGTGGCGTGTCACCGGCCCAGCGGCCAGACCGCAGCTCACCTGCAGCCCTGCGTGTGCGCGTGTCTCCCTCACCTGCAGTTCCCCGCTTGTCTCCAG
Seq C2 exon
GAGGAAGAGAGGTGGGGTGAAGCCAGCAACGACGAGGACGACCCCAAGGAGAAGGCGCTCCCTGAAGACCCGGAGACCTGCCTGCAGCTGAACATGGTCTACCAAGAGGTGGTCCGGGAGAAGCTGGCGGAGGTCAGCCTGCTGCTGGCCCAGAACCGGGAGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000054:ENSBTAT00000000060:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.815 A=NA C2=0.500
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:
ATTTGCTGCCCGACGAGGA
R:
CTGCTGCTCCCGGTTCTG
Band lengths:
221-1302
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development