BtaINT0087113 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004969 | LRRC14
Description
Bos taurus leucine rich repeat containing 14 (LRRC14), mRNA. [Source:RefSeq mRNA;Acc:NM_001102379]
Coordinates
chr14:1611033-1612156:-
Coord C1 exon
chr14:1611803-1612156
Coord A exon
chr14:1611618-1611802
Coord C2 exon
chr14:1611033-1611617
Length
185 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
CAGCCCACCCATGCTCCCAGGAA
3' ss Score
3.79
Exon sequences
Seq C1 exon
GTGACCTCCTGCCTGGCCTAGCGCCATGCACACCCTCGTGTTCCTGAGCACACGGCAGGTGCTCCAGTGCCAGTCAGCTGCCTGCCAGGCCCTGCCCCTGCTGCCGAGAGAGCTCTTCCCCTTGCTGTTCAAAGTGGCCTTCATGGACAAGAAGACTGTAGTGCTGCGTGAGCTGGTACACACTTGGCCTTTCCCGCTGCTCAGCTTCCAGCAGCTGCTGCAGGAGTGTGCCCACTGCAGCCGGGCCCTGCTGCAGGAGCGGCCCAGCACAGAGAGCATGCAAGCTGTGATCCTGGGCCTGACTGCCCGGCTCCACACCCCGGAGACTGAGCCTGGCACGCAGCCCCTCTGCAG
Seq A exon
GTATGGGCTCACTGGAGGGACCTTCAGGCCTGGTGGGGGGATGCAGAGTGGGTCTCCCCAAGAGGTTCCAGGCTGGTACAAGAGCTCAGTGCAGAAATAGGCATGTTGCTTCTGTCCCAAGGTGGCTGGGAGTGGGTGTGGGCTCTGTCCCCTTGTCTCCTGCCTCAGCCCACCCATGCTCCCAG
Seq C2 exon
GAAGCATACGCTGCGGGTGCTGGATATGACGGGCCTCCTGGATGACGGCGTGGAGCAGGACCCTGGCACCATGAGCATGTGGGATTGCACGGCAGCTGTGGCCCGCACGTGCATCGAACAGCAGCAGGGCAGGACTGCAGAGCCTGGCCAGGCCCCTGTTCCTGTGGAGGTGCGTGTGGACCTGCGGGTGAACCGGGCTTCCTATGCGTTCTTGCGGGAGGCACTCCGCAGCAGTGTAGGCAGCCCACTGCGGCTCTGCTGTCGGGACCTGCGGGCTGAGGACCTGCCCATGCGCAATACAGTGGCCCTGCTGCAGCTTCTGGATGCAGGCTGCCTGCGCCGCGTGGACTTGCGCTTCAACAACTTGGGCCTGCGCGGCCTGTCCGTCATCATCCCACACGTGGCCCGCTTCCAGCACCTGGCTAGCCTGCGGCTGCACTATGTGCATGGGGACTCTCGACAGCCCTCTGTGGACGGTGAGGATAACTTCCGCTACTTTCTGGCCCAGATGGGCCGCTTCACCTGTCTGCGGGAGCTCAGCATGGGCTCCTCTCTCCTCTCAGGGCGGCTGGACCAGCTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004969:ENSBTAT00000006542:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.055 A=NA C2=0.046
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGACTGTAGTGCTGCGTGAG
R:
ATCCAGGAGGCCCGTCATATC
Band lengths:
246-431
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development