BtaINT0084114 @ bosTau6
Intron Retention
Gene
ENSBTAG00000027181 | LAMA3
Description
laminin, alpha 3 [Source:HGNC Symbol;Acc:HGNC:6483]
Coordinates
chr24:33118951-33119331:-
Coord C1 exon
chr24:33119215-33119331
Coord A exon
chr24:33119131-33119214
Coord C2 exon
chr24:33118951-33119130
Length
84 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGC
5' ss Score
5.66
3' ss Seq
CCTGTTTGTATGTGCCTTAGATG
3' ss Score
7.5
Exon sequences
Seq C1 exon
AAATCAGCCCAGCTCTCAACAACCTGCAGCAAACACTGAAAACTATGACAGTTCAGAAAGGCCTGATAGACACCAATCTCACCAGCATCCGAGGTGATCTTCGTGGAATACAGAGAG
Seq A exon
GTCAGCTGCTCCCTAACCCACTGGACTTGGCTTCTTTGTCAAACATTTTAGAGACTTACACCTCCCTGTTTGTATGTGCCTTAG
Seq C2 exon
ATGACATCGATGGCATAATCAGTAGTGCAAAGAGCCTGGTCAGAAACGCCAATGACATCACAAATGAGGTTCTAGATGGGCTCAACCCCATTCAGACAGATGTGGAAAGAATTAAGGATACCTATGGGAGCACCCAGAGCGAAGACTTCAACAAGGCTCTCAGTGATGCGGATAACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000027181:ENSBTAT00000060991:53
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.125 A=NA C2=0.279
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF060097=Laminin_II=PU(39.5=83.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCAGCCCAGCTCTCAACAAC
R:
TCATTGGCGTTTCTGACCAGG
Band lengths:
170-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]