BtaINT0084403 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022635 | LAMC1
Description
Bos taurus laminin, beta 2 (laminin S) (LAMB2), mRNA. [Source:RefSeq mRNA;Acc:NM_001046247]
Coordinates
chr22:51458361-51459343:+
Coord C1 exon
chr22:51458361-51458481
Coord A exon
chr22:51458482-51459154
Coord C2 exon
chr22:51459155-51459343
Length
673 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
CTTCCTTCCCCTCTCCCAAGAGT
3' ss Score
8.43
Exon sequences
Seq C1 exon
GTTCATGGGGCCTGCGTCTGCAAACACAACACTCGCGGCCTTAACTGTGAGCAGTGTCAGGATTTCTATCACGACTTGCCCTGGCACCCGGCTGAGGACCGCCATAGTCATGCCTGCAAGA
Seq A exon
GTGAGTAAGACCCCAGCCCCCACTGCCCCAAAACTCTGTGGCCTGGCTATGCCCAGGGTACAACCTAGAGATGGTTGGTTAAGTCCCTAACACCTAGATTGTGTCTGAAGGATATCAGGAAGGAATTCCCTGGTGGCCCAGTCGTTAGGACTCAGCGCTTTCACTGCCAGGGCCTGGGTTCAATCCCTGGTCAGGGAACTAAGATCCTGAAACCATAAGGCGTGGCCAAAAAAAAAAAAGGATTTGTGAAGGGGCCTTCCTTGGTGGCTCAGATGGTTAAAGAAACTTCCTGCGATGCAGGAGACCTGGGTTTGACCCTGGGTCAGGAAGATCCCTTAGAGAAGGAAATGGCAACCCACTCCAGTATTCTTGCTGGAGAATTCCATGGGCAGGGAAGCCTGGTGGGCTGTGGTCCATGGGGTCACAGAGAGTCAGACACAACTGAGCAACTAACACTTTCACTTTTCATCCTGGTCTCAATGCCCCCGGGGACTCCTTCAACCCTTCTCAACAGCGTGCTCTGATGAGGGGCCCAGTAGAAAGCCAAACCCCCACCCACAAATTCTGGCCGGTGGCAGGGACCTAAGGTGGCACTGGGGGTCCCTAAGTCCCTTCCTCTCAGGGCACGGTCCCTCCAGTGACCTTTGCCCTCTCTTCCTTCCCCTCTCCCAAG
Seq C2 exon
AGTGCGAGTGCCACGGGCACGCCCACAGCTGTCACTTCGACATGGCCATATACCTGGCATCCGGCAATGTGAGTGGAGGCGTGTGTGATGGGTGTCAGCACAACACAGCCGGGCGCCAATGTGAGCTCTGCCGGCCCTTCTTCTACCGGGACCCGACCAAGGACCTGCGTGACCCCGCTGTGTGCCGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022635:ENSBTAT00000057452:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(61.3=92.7)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=95.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCATGGGGCCTGCGTC
R:
GTCACGCAGGTCCTTGGTC
Band lengths:
294-967
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]