BtaINT0084421 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000793 | LAMC2
Description
laminin, gamma 2 [Source:HGNC Symbol;Acc:HGNC:6493]
Coordinates
chr16:65740896-65741947:+
Coord C1 exon
chr16:65740896-65741032
Coord A exon
chr16:65741033-65741824
Coord C2 exon
chr16:65741825-65741947
Length
792 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
TGGTTTTACTTATGTTCCAGATG
3' ss Score
9.07
Exon sequences
Seq C1 exon
GTGCCGACCAGGTTACTATCACCTGGATGGGAGAAACCCTGAGGGCTGCACCCAGTGTTTTTGCTATGGGCATTCAGCCAGCTGCCAAAGCTCCGGAGACTACAGTGTCCATAAAATCACATCTACCTTCCATCAAG
Seq A exon
GTAAAGCATTCTGTTTTCTAGGTGTTTTGCTTTTATTTACTGCTGTACAGGGCTTTGTGCTTGTAGACTTCTGTCCGCAGGATGGGGTCCTTGAGTCACCTTTAACAGGATGACTCTCTTCTAGCTTTAAATGTACGTTATTTTGTCAGGCAATAAGAAAGAGCCTCGTGTCTTGGAAAAGTTATACTCAGACCAGCTTATGAATGACTTATAAAAATAACTAAAAAGAGAACAGATTTTCAACTCCCTGCATTTCCTATTAATGTACTTTAAAACCACAAAAGAATCATTGGATTGAGGGGCTTAACACAAGTCTTGGAATGGAATTCACATTCACTAATATTATTTCTTTCATGTATGCCAAACGAGTTAATTTATGTGAAATTAGTTACCAAGCTACAAAGCACTCTAAAAATATGGGAGATTAATATGATCTCAACTCTGAGTTTCTCTCTGGACATACTGGACCCTCTAACCTCACTAAGGCCAGACCGTGTTTATGTAAATGAAATAAAAATGCAAATTACAGGCAGATGAAAACATGTTCTCTTATTCCAAGAGTCAGATTCAAAGACAAGAAGTTAAAGCAGGTGTAAACAGGAGTAGGTGAAGGTGAAAGCCAAGTAGAGAGGTGCATAGGGAATTCTGAGGATGGTGCATGAATGTGGAAATATAAAGAAAACCCACTTGTTACTCACTCATTGCTAGTGAGTAGCAATCAAGTCTTGCCTTGTTTAACTCAACAGATGATAAGGTTTGTTCTAATGAAGAGTGGTTTTACTTATGTTCCAG
Seq C2 exon
ATGTTGATGGCTGGAAGGCTGTCCAGAGAAATGGATTTCCTGCAAAGCTCCAGTGGTCACAGCGCCATCAAGATGTGTTTAGCTCCGCACGACGATCAGACCCTGTCTATTTTGTGGCTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000793:ENSBTAT00000061289:5
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(34.8=34.0)
A:
NA
C2:
PF0005213=Laminin_B=PU(3.8=11.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCGACCAGGTTACTATCACC
R:
GGAGCCACAAAATAGACAGGGT
Band lengths:
256-1048
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development