HsaINT1018095 @ hg38
Intron Retention
Gene
ENSG00000184925 | LCN12
Description
lipocalin 12 [Source:HGNC Symbol;Acc:HGNC:28733]
Coordinates
chr9:136954724-136955497:+
Coord C1 exon
chr9:136954724-136954826
Coord A exon
chr9:136954827-136955370
Coord C2 exon
chr9:136955371-136955497
Length
544 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGC
5' ss Score
5.66
3' ss Seq
GACTCCATCTCCCCCACCAGGCT
3' ss Score
7.15
Exon sequences
Seq C1 exon
GAGGTGCCCTGGACCTCAGCAGCCTGCCCTGGGTGGCAGCCCCAGCCTGACCACTCAGACAGCCGCGGCCCCCAAGGCCTGACTCTTCTTGTGGGAGGGCGAG
Seq A exon
GTCAGCCTGAGTCCCTCCTCTTCCTGGAGGGATGCCCACCGTGCCCTTCTGATTCCCGCCTCTGGTCCTTTACATGTGCATAACCACATGCACACACACTCACGCATGAGCAAACGTGTACAGACTGGCACATGCCTCCACATGCGAACACCCACTTACACACACGCCACTCACACTGGCACACATGCTGTCTACCCGTGCACAGGCACACGTGCTGGTCTGCACACACCTGCACACACCTGCACACTCGCTATGCCAGGCCTCCTGGGTCTGCAGTGAGTCTGGGGGCCCATGGGGACAGGGACAGGTGAGGGGCTTCCTGAGGACCTGGGGCTGTTGGGAGCCGCTGTGGGCCACATCTTCTGCCCCTTCTCAGCCTCCCTCACCCCAGCCCCTTCCCCTAGACCCACTGCTGGTCCCCTTTCTCCCTCCTGCTTCTCACCTGAAGCCACCTGCCCCTCCTTTGTGCCCTCCCTTGCTTCCTCCTGGGCTCTGTCCCCTGCTCCCCCTTTGTCCTCCATCCCGACTCCATCTCCCCCACCAG
Seq C2 exon
GCTGGTCACCCCAGGCCAGCGTCTGTTGAAGGATGAAGCAGCTCCTGTCCGGCCCAGCCCTGCCTCACAGCTGTGCGAGCTCTGCCCTCCTCAGCTCTCAAACCTGAATAAATGCACCAAGCCCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000184925:ENST00000491316:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0006118=Lipocalin=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGTGCCCTGGACCTCAG
R:
TCTGGGCTTGGTGCATTTATTCA
Band lengths:
230-774
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains