BtaINT0130222 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000854 | SEC16B
Description
SEC16 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:30301]
Coordinates
chr16:60750497-60751114:-
Coord C1 exon
chr16:60751016-60751114
Coord A exon
chr16:60750606-60751015
Coord C2 exon
chr16:60750497-60750605
Length
410 bp
Sequences
Splice sites
5' ss Seq
GAGGTGACC
5' ss Score
5.57
3' ss Seq
CTCCTTTCTCCACTAAGCAGGAG
3' ss Score
4.69
Exon sequences
Seq C1 exon
AGCTCAGGGTTTGGCTGGTTCAGCTGGTTCCGCTCAAAGCCCACCCACAACGCATCCCCCTCTGGAGAAGAAGATTCGTCTGACAGCCCGGACTCTGAG
Seq A exon
GTGACCTCGGGCGGAAGGTTGTGGGGGGGGCTGGACAGGGAAGCTCCCTCTTCTGTGGCCCCTTCTGAGGAAGTTTCCTCAACTCCAGGAGGGCCTGGAGCTGGCCTCTCCACCCTGGTCTGGATGAAACTGGTTTTGTGATGGGAGGTTGTGGGAGACAGATTGGTCCAGTGAGGGGAGAGGCAGATGACGAAAGGCCTTAAAAGTTAGGATGTAGAATTTTAACTTTCGAGAGCCGGCAGTGACTTGGCTTATTGAGCAGAGGAGTGGTATGAAGACAATGGAGTGTGGTGGAGAGGAGGCCAGCCCTGGTAGAGGGTGGAGGCCGCCATGTGGGTGCTGCAGGAATGCAAGCAGGTGGCATGGACGTGTGGAACCATCAGCGCCACCCTCCTTTCTCCACTAAGCAG
Seq C2 exon
GAGATGCCCAGGGCAGCGTCTCTACCTCAGCCCAGCCCAAGCCTCTCACTGACACCTTCCCCAGATCCCCAGTCTCTGCTGGGTGCCAGTGCCTTCTCCAGGGACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000854:ENSBTAT00000001137:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.758 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
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:
CTCAGGGTTTGGCTGGTTCAG
R:
CTGTGTCCCTGGAGAAGGCA
Band lengths:
206-616
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development