BtaINT0084893 @ bosTau6
Intron Retention
Gene
ENSBTAG00000039531 | LCN12
Description
lipocalin 12 [Source:HGNC Symbol;Acc:HGNC:28733]
Coordinates
chr11:106277392-106277711:-
Coord C1 exon
chr11:106277592-106277711
Coord A exon
chr11:106277494-106277591
Coord C2 exon
chr11:106277392-106277493
Length
98 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGC
5' ss Score
2.62
3' ss Seq
CCATGCTCCTCGGCCCCCAGGCA
3' ss Score
7.94
Exon sequences
Seq C1 exon
CAGAGCCCGGGGCGGACCCCGAGGAGATCCAAGTGTATGACACGGACTACGCGTCCTTCGCCCTCCTACTCTCCAAAAAGCAGTCGGACCTGCAGAGGATCCTCAGGGTCAGCCTGCTGT
Seq A exon
GTGAGCCCCTCGCCCCAGCGCGGTCAGTCAGGGTGGGTGGGGGACAGGGAGGCCAGTCTACGTGTGGCTGAAGCCAGGCCATGCTCCTCGGCCCCCAG
Seq C2 exon
GCAGAATATGGGCTATTCAGACCCAGGTGCTGGACAAGTTCGTCTGCCTGGTCCGAGCTCAGGGCCTCTCGGATGACAGCATCGTCTTTCCAGACCTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000039531:ENSBTAT00000032576:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.104 A=NA C2=0.123
Domain overlap (PFAM):
C1:
PF0006118=Lipocalin=FE(27.4=100)
A:
NA
C2:
PF0006118=Lipocalin=FE(23.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCTTCGCCCTCCTACTCTC
R:
TCAGGTCTGGAAAGACGATGC
Band lengths:
167-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development