BtaINT0130185 @ bosTau6
Intron Retention
Gene
ENSBTAG00000023933 | SEC16A
Description
SEC16 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:29006]
Coordinates
chr11:103949355-103949714:-
Coord C1 exon
chr11:103949603-103949714
Coord A exon
chr11:103949461-103949602
Coord C2 exon
chr11:103949355-103949460
Length
142 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
ACGACGCCTGTGCTCCACAGTTT
3' ss Score
6.15
Exon sequences
Seq C1 exon
CCTCCAAAGGGCTCATTGATGCTGCGCACTTCTGCTACCTCATGGCCCAGGTCGGATTTGGGGTGTACACCAAGAAGACCGCAAAGCTTGTCTTAATTGGGTCAAACCACAG
Seq A exon
GTAAGGGACATGGCGTCGCGGCGCCCGCATCCCTTAGAAGGGACGAGGCCCCATGCGGCTGCGCGGAGCCGCGGTGCCTGGGGTGCTTGGCGCTTCGGCTTCCAGGGGCCGCTCCGCGTGACACGACGCCTGTGCTCCACAG
Seq C2 exon
TTTGCCGTTTTTGAAGTTTGCGACCAACGAGGCGATCCAGAGGACAGAGGCCTATGAGTACGCGCAGTCCCTGGGGGCGCAGGCCTGCTCCCCTCCCAGCTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000023933:ENSBTAT00000042743:14
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=0.000
Domain overlap (PFAM):
C1:
PF129312=Sec16_C=FE(14.1=100)
A:
NA
C2:
PF129312=Sec16_C=FE(13.3=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:
CCTCCAAAGGGCTCATTGATGC
R:
CTGGAAGCTGGGAGGGGAG
Band lengths:
218-360
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development