BtaINT0002235 @ bosTau6
Intron Retention
Description
NA
Coordinates
chr11:99493557-99494126:+
Coord C1 exon
chr11:99493557-99493685
Coord A exon
chr11:99493686-99493986
Coord C2 exon
chr11:99493987-99494126
Length
301 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
GTTTCCATTTGGCACCCTAGCGA
3' ss Score
3.83
Exon sequences
Seq C1 exon
TCACACCCCCAGCCTGCAGTCTCTCTGCATCTGCAGCCTGGCCTACACGGAAGCAGGACAGACAGTAATCAATATCATGGGCATCGGTGTGGACACCATCGACATGGTCATGGCTGCTCAGCCCCGCAG
Seq A exon
GTAGGCCTTCCTCTCCACCTTCCCCATGTGTCTTTATCGTGCCCGCATGTTGTAAGAACTGGAGCGTAAGAAAGACAACCTGTTCTTCCTAGGATGTAGCCTCTGTATAACCTACTGGCTGCTGTATAGACTGGCACACAGCAAAGGGAGCTGAGTGCGCCTCCTCTCTCCTAGTTTGGACTGGGGCCTCTAGAGCTGTTGAACTCTGGGACTGTTGTTGGAATCTCATTCATGAGAGCACATGTGTTGCGAATGAAGTCATGTTGTCTGAATCAACTTTGGTTTCCATTTGGCACCCTAG
Seq C2 exon
CGATGGGGCAGAGGGCCAGGGCCAGGGCCAGCTGCTGATCAAGACAGTGAAGTTGGCGTTCTCTGTCACCAACAATGTCATTCGGCTGAAACCGCCTTCTAATGTGGTGTCCCCTCTGGAACAGGCTCTCACACAGCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010613:ENSBTAT00000014030:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=NA C2=0.042
Domain overlap (PFAM):
C1:
PF104874=Nup188=FE(4.7=100),PF118943=DUF3414=FE(8.6=100)
A:
NA
C2:
PF104874=Nup188=FE(5.1=100),PF118943=DUF3414=FE(9.4=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:
CCCAGCCTGCAGTCTCTCT
R:
CATGCTGTGTGAGAGCCTGTT
Band lengths:
262-563
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development