BtaINT0084894 @ bosTau6
Intron Retention
Gene
ENSBTAG00000039531 | LCN12
Description
lipocalin 12 [Source:HGNC Symbol;Acc:HGNC:28733]
Coordinates
chr11:106276096-106277493:-
Coord C1 exon
chr11:106277392-106277493
Coord A exon
chr11:106276125-106277391
Coord C2 exon
chr11:106276096-106276124
Length
1267 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
AGGCTCTGTCTCTCCATCAGAGT
3' ss Score
6.32
Exon sequences
Seq C1 exon
GCAGAATATGGGCTATTCAGACCCAGGTGCTGGACAAGTTCGTCTGCCTGGTCCGAGCTCAGGGCCTCTCGGATGACAGCATCGTCTTTCCAGACCTGACAG
Seq A exon
GTGGGCTTCTGCACCAGCTGGCGTCTGCCCGGGGCCTCGGAGCCCTGCGGGGGTCCTGCGGGAGCCCGGCCCACACCTGTGGCCCAAGCGTGGGGTCCCAGCTACCCCAGGGTTCAGCCTGAGTCCATATTGGGGGTCTCAATGCTCCTTGGTCTCCTCCCTACCTGCGTCCCCTTCCCCGGGGCCAGCCCCTCCCCCACGGTCTCCCTTCCCCTAGGTCCCCCAGTCCTGGGTCACCCCCTCCCACTTGGGACCCCTCCCCAGGTCACCCCACCACACCCGGGTCACCCCCTCCCACCTGGGTCCCCCTCCCCCGGGTCACCCCTCCACACCCAGGTCACCCTTCCTACCCGGGTCACCCCCTCCCACCCAGGTCCCCTCCCCCAGGTCACCCCCTTCCACCTGAGTCCCCCTCCCACCCAGGTCACCCTTCCACACCCAGGTCACCCCTTCCTGGGTCACCCCCTCCCACTCAGGTCCCCCCTCCCCCGGGTCACCCCTCCACACCCAGGTCACCCCTTCCCGGGTCACCCTCCCACCCAGGTCCCCCTCCCCCAGGTCACCGCCTCCCACCTGTGTCCCCTGCCTACCCAGGTCACCCCTCCACACCCAGGTCCCCTCCCCTGGGTCACCCCCTCCCCAGCCAAGTGCCCCTCCCGTCACCCCTGAGTTTCCTTCCTCTGCTCTTACACATGACAGCCACATGCACATATACCACTTCACGCTTGAACATATACCACTTACACACGCATGCACACACACGTGCACAGGGAGGATGCCCTCGGGTACACACTCGCTCACAAGCATGTGCAGCCCACCGCACACCCACCATGCTTGGCCACCAGGGTCTGCAGTGAGTCTGGCCCCATGGGCACTTCCCCCCAGGAGGTCAGGCTGGCAGCAGGGCAGCCCCTAGAGGTGCCTCGGCCCCCACCCCAGCCCCTGCCCCCTCCCTGCCTCCTCCCCATTCCCTCCTGAAAGCGACTGTGTGCACGTGTGTGCGTGCGTGTGCGTGTGCACGCGTGTGTGTGCATGTGTGCATGATGCCAGTCTGTGCGTGTGCGTGTGTGCACGTGTGTGTGTGTACATGTGTGCACGATGCCAGTCTGTGCGTGTGTGCGTGTGTGCATGTGTGTGTACATGTGTGCACGATGCCAGTCTGTGTGTGTGTGTGTGCATGTGTGTGTGTCTGTGTCTGTCTTGGTTTCCCTCCCGGCTCTGCCCCGTCCCCTGCGGCCTCCATCCCGAGGCTCTGTCTCTCCATCAG
Seq C2 exon
AGTGGTCAGTCCTGCCTGAGAAATGCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000039531:ENSBTAT00000032576:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.123 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006118=Lipocalin=FE(23.3=100)
A:
NA
C2:
PF0006118=Lipocalin=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development