BtaINT0084412 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000793 | LAMC2
Description
laminin, gamma 2 [Source:HGNC Symbol;Acc:HGNC:6493]
Coordinates
chr16:65762412-65763394:+
Coord C1 exon
chr16:65762412-65762556
Coord A exon
chr16:65762557-65763244
Coord C2 exon
chr16:65763245-65763394
Length
688 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TCATTTTTGGGGACTCACAGGTA
3' ss Score
5.34
Exon sequences
Seq C1 exon
ATTGGAGAAAATCAAGTCTCTGGCCCAGCAGCTATCGAGGGAGGCCACTCAAATTGACAATGAAGCAGATACGTCATATCAGCATAGTCTCCGCCTTCTCAGTTCAGCAACTCAGCTTCAGGGGGTCAATGATCAGTCCTTCCAG
Seq A exon
GTAAGAGCATCTAACCTATGCAGTGATGTACAGAAGAAGGGCCATAATGCTTTCTTCTCAGGGGATTCCATTGAATTGTTCAATCATCCAGTTTTTTCCCCATATTTACCTTTCTTGCTTTAAATTAAGAAGAGCATTTATCCTCCTCTTTCTTTATTCTTAAACTCCAATCGTGGTCCCTGATAACACCTTGGTTCATATTCTGAACCTATTTCTGTTGGTGAATACAAGTTTTCTGTCTCTTCCCTAGTTTGGGGGACTGTTGAAACCTGTGAGAAATTACCATGGAACTTTTGATATCTACCTTTGGGTCCAACCTATATATTTTCATGTGTAGCCACTTGGAAGGCTTTTTTTTTTTTTTTCCCTCAAAAGTTTGCATTGTTTCTGTCATCAATTCCTTTAACTATTCCAAATTTATTGGATTAAGATTCAGCTTTCTACCCACAGCAAAAAGCATTCACAATGATTTTCACACATAATAATAATAAAAAAATGCAGAGCAGACATAAAATTCGTTTGCTAGCTGGGGGGCATGCTGCCTGACTTGCATGAGGAATATTGCCTCATTTCTGTTGGACTTTGGGCCTGGATTGTTGTTTTCAGACAATGATGGCAGGTCATGGGAAGACTGGTGTGGCAACTGGCGAGCAGAAAGTAAGGCTTATTCATTTTTGGGGACTCACAG
Seq C2 exon
GTAGAAGCGAAGAAGATCAGACAAAAAGCTGACTCTCTCTCAAGCCTGGTGACTAAGCGAATGGATGAATTCAAGCGTGTGCAAAGCAGTCTGGGAAACTGGGAAGAAGAAACCCAGAAGCTCTTACAGGATGGGAAGAATGAGAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000793:ENSBTAT00000061289:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.265 A=NA C2=0.400
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TTGGAGAAAATCAAGTCTCTGGCC
R:
CTGTCTCTCATTCTTCCCATCCTG
Band lengths:
294-982
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development