BtaINT0130203 @ bosTau6
Intron Retention
Gene
ENSBTAG00000023933 | SEC16A
Description
SEC16 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:29006]
Coordinates
chr11:103954527-103955266:-
Coord C1 exon
chr11:103955140-103955266
Coord A exon
chr11:103954726-103955139
Coord C2 exon
chr11:103954527-103954725
Length
414 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
CTGCCTACTGCCTCCTCCAGGCC
3' ss Score
8.72
Exon sequences
Seq C1 exon
ACCCAAGTCGCTGGGATCGGTTCTACTACGGCCCTCGGTTCAGAGACCCCCGTTCCTACGACAGGGGGTATTGGTGTGATGCCGAGTACGACTTGTGCAGGAAGGAGAACTACGCCTACGGTGACAG
Seq A exon
GTGGGCAGCACAGACTCCAGCACGGAGGGCGGGCCGTGAGTCAGCCGGGCCTCTGCCCTTGGGTCCTGCGTTCACTCGAGAGCTGCGGTCGCATCTGGCTCCCAGGCACCCGCCACTGTCAAAGAAGGGTGAACCGGAGGTTCTTTCTTCGGGCTTTTGGTGGGGAACTGACCTTAGAACCAGCGCGGGGAGTCAGTTCAGCCTCTTCTTCGCAGGTCCATGAGAGGCGTGACTGCCTTGGAATGGACCCCCAGCCTGTATCTCTTGGTCTCAGGCAGGGCCTGAACTTGGCCGTGGGTGCGGTGACCCCGCTACAGTGTGGGCTGTGGCGAGTGTCATTCCTGGGGTCAGGACCCTGGGGGGCTCAGCCGTGTGCAGCATAGGAGCCTTGCCTCTGCCTACTGCCTCCTCCAG
Seq C2 exon
GCCCGAGAAATACGATGACCGCTACAGGTACGACCCCCGCTTCACCGGGAGCTTTGACGATGAGCCCGAGCCACCTCGGGACCCTTACGGGGAGGAGGTGGACCGGCGTAGTGAGCACAGCGAGCACTCGGCACGGAGCCTGCGCAGCGCGCCCAGCCTGCAGAGCCGCCGCAGCAGCTTCAGCGCCCACTCCCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000023933:ENSBTAT00000042743:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.940
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGTCGCTGGGATCGGTTCTA
R:
TGGGAGTGGGCGCTGAAG
Band lengths:
318-732
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development