BtaINT0130207 @ bosTau6
Intron Retention
Gene
ENSBTAG00000023933 | SEC16A
Description
SEC16 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:29006]
Coordinates
chr11:103952150-103952456:-
Coord C1 exon
chr11:103952395-103952456
Coord A exon
chr11:103952289-103952394
Coord C2 exon
chr11:103952150-103952288
Length
106 bp
Sequences
Splice sites
5' ss Seq
CAAGTACGT
5' ss Score
8.4
3' ss Seq
AGCGTGTGTTCTTTTTGCAGAGA
3' ss Score
9.49
Exon sequences
Seq C1 exon
ACCTTGCTGCAGCATACACCAGAGCAGGAGGAGATGCGGGCCTTCCCAGGACCTCTCGGCAA
Seq A exon
GTACGTGCCCACAGAAGCGCTCTCGGTGCCCCGCCCACTGGCTGTGCCGGGCACGGCCTGGCAAGTGCTGCGGCTGCTGTTCACCAAGCGTGTGTTCTTTTTGCAG
Seq C2 exon
AGATGAGACCCATAAAGTGGATGTTATTAATTTTGCACAGAACAAGGCTACAAAGTGTTTGCAGAATGAAAACTTAATAGACAAAGAGTCTGCGAGTCTTCTCTGGAGCTTTATTGTCCTGCTGTGCAGGCAGAACGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000023933:ENSBTAT00000042743:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.064
Domain overlap (PFAM):
C1:
PF129322=Sec16=FE(19.4=100)
A:
NA
C2:
PF129322=Sec16=FE(44.7=100)
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:
CTGCAGCATACACCAGAGCAG
R:
CCCGTTCTGCCTGCACAG
Band lengths:
195-301
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development