BtaINT0130184 @ bosTau6
Intron Retention
Gene
ENSBTAG00000023933 | SEC16A
Description
SEC16 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:29006]
Coordinates
chr11:103949603-103949973:-
Coord C1 exon
chr11:103949856-103949973
Coord A exon
chr11:103949715-103949855
Coord C2 exon
chr11:103949603-103949714
Length
141 bp
Sequences
Splice sites
5' ss Seq
TGGGTAGGT
5' ss Score
6.86
3' ss Seq
CCTGCTTTCTCTCCCCTCAGCCT
3' ss Score
10.54
Exon sequences
Seq C1 exon
TGCTGTGGGGATGAGAAGTGGGGAGACTGGCGGCCACACCTGGCCATGATCTTGTCCAACCTGAGCAGCAGCGTGGACGTGGAGTCTCGGGCCATGGCCACGATGGGCGACACCCTGG
Seq A exon
GTAGGTCAGGGTGGACGCGGAAGAGGGGCCTGGGCCTCTGCGCTCCAGCCCGAGACTGGCCCTCTGCCCGGGGTGTCCGTGTGTCCCTGGGAGTGTGGTGCTGTCCTGGAGCCCGAGCCCGCCTGCTTTCTCTCCCCTCAG
Seq C2 exon
CCTCCAAAGGGCTCATTGATGCTGCGCACTTCTGCTACCTCATGGCCCAGGTCGGATTTGGGGTGTACACCAAGAAGACCGCAAAGCTTGTCTTAATTGGGTCAAACCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000023933:ENSBTAT00000042743:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF129312=Sec16_C=FE(14.8=100)
A:
NA
C2:
PF129312=Sec16_C=FE(14.1=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:
TGCTGTGGGGATGAGAAGTGG
R:
GTGGTTTGACCCAATTAAGACAAGC
Band lengths:
228-369
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development