BtaINT0130183 @ bosTau6
Intron Retention
Gene
ENSBTAG00000023933 | SEC16A
Description
SEC16 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:29006]
Coordinates
chr11:103949856-103950194:-
Coord C1 exon
chr11:103950113-103950194
Coord A exon
chr11:103949974-103950112
Coord C2 exon
chr11:103949856-103949973
Length
139 bp
Sequences
Splice sites
5' ss Seq
ACGGTCAGT
5' ss Score
8.02
3' ss Seq
TTGCTTGCTTCTGGTTTCAGTGC
3' ss Score
8.19
Exon sequences
Seq C1 exon
GTTCGCCAACAGCCTTCCAATCAACGACCCCCTGCAGACTGTCTACCAGCTGATGTCTGGGCGGATGCCGGCCGCGTCCACG
Seq A exon
GTCAGTGGGTCCTGACGACGCCTCAGCTTGGCCTTTGTGCAGAGTCCGCGCCTGCTTCCTTCTCACACCCACGCGCTCAAGCCCTGCAGAGCTGAGTGTGTTCTGAGCCTCAGGGTTTTTTGCTTGCTTCTGGTTTCAG
Seq C2 exon
TGCTGTGGGGATGAGAAGTGGGGAGACTGGCGGCCACACCTGGCCATGATCTTGTCCAACCTGAGCAGCAGCGTGGACGTGGAGTCTCGGGCCATGGCCACGATGGGCGACACCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000023933:ENSBTAT00000042743:12
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(10.3=100)
A:
NA
C2:
PF129312=Sec16_C=FE(14.8=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:
TTCGCCAACAGCCTTCCAATC
R:
TCGCCCATCGTGGCCATG
Band lengths:
191-330
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development