BtaINT0084452 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017473 | LAMC3
Description
laminin, gamma 3 [Source:HGNC Symbol;Acc:HGNC:6494]
Coordinates
chr11:101273412-101275846:+
Coord C1 exon
chr11:101273412-101273578
Coord A exon
chr11:101273579-101275657
Coord C2 exon
chr11:101275658-101275846
Length
2079 bp
Sequences
Splice sites
5' ss Seq
TACGTGAGT
5' ss Score
7.77
3' ss Seq
CCCCCGCCTCCTGCCCACAGCTT
3' ss Score
11
Exon sequences
Seq C1 exon
GTGCAAGTGCAATGGGCACGCCAGCGAGTGTGGCCCAGACGAGGAGGGCCGGCTGGCCTGTCGATGCCAGCACAACACCACGGGCACGGACTGCGAGCGCTGCCTGCCCTTCTTCCAGGACCGCCCGTGGGCCCGGGGCACGGCCGAGGCCGCCAACGAGTGTCTAC
Seq A exon
GTGAGTGTCCCGGAACTTTGGGGGCCAGAGGCAGGGGGGTTGCAGGCTTGGGAAACCAAGCCCCCAGCCCTGCTTCTGGGTGGGCTGGCAGCAGCTTGGGGCTGTCACCCCCACATAGGGACCAGGACGAGCCGAGGGAGAGCTGGACGGGGCGTTTGATCCTCAGCCCTTGCCCCCACACACAGAGCCCCAGACCCAGTCTTCCCAGTTGAGGCGTGCGGGGCGGGAGGGCTGAAAAGGACCCCCAACTTGTTCCTTTGTTTTCACCACTCCAACCGCAGCTGCTAATCAAAGCCAGGCCACCCCGGCCCCTGGGAGGGTGCCGACCTGCCCACCCAGCCTCTCCTGCAGGCCCCCAGGCAGCCCTGGGATGCCCGACCCGTGTGATGTGGCCGGGGCTGCCTAACCTCAGAGACGCACGCTGCAGAGGCTGGTGGCGCTTTACCTTCCCCGCTGGGGGCTCTTCGCCGCCTGGCGTGCCCCCTCTAGCCTCACTGTGTCCCCAAGCCCTGCCTGCCTCCCCCTCCCCCGACAGTCATCTGACGCTCGGGGCTCCCAAGTGCAGCTGGCTGTCGCTGGGCACCAGACCCCGCCTGGTTCCACGCTGGTGGGAGGCACGTCTTCCCACGCATGTGCTCCTGATGGCTCGGCCTCTGGACCCACTGTCCTCTTGGGCCTGGGCTGCTGACACAGAGACCCAGCGGGGAGGGAGGGGACGGTCTGTTCCACGGAACCGGATGCTGTCTGCAGGAGCTTCCCAGGGCCACCGTGGCCCTAATGAGTTCCTTCTGCCCTCACTGGCCTGCCTCCACCAGGAAGTCCTCCTGGAGCCAAGGAAGCTGGCTGGCTCACCATTCCCAGTCTGGGGCTGACTCCATGGTGGGGACACCAAAGGCTGTGTCCTCACCCCTGAGGTCACATCTCTGTCCTCCCAGCCTGGAAGCTGGGCTGTATGCCTGACCCCTCTCACCCACCAAGTCCAGGCAACCCTGAGCCCCGATTTTGATCACATTCACGCCCCTCCAACCCAGCTAACTGTGTCCTTCTGCACAGCCAATACATGGTCCAGCCAGTCACCCCTCCTCTGAGCGGCTAAGACCCCACCTCCCCGCTCTCAACCCCCTCACCCCTATCCCCTGCTTGCACCACTTTCAAATGCAAATGTAATTGCAGTCATCCACTCCAAGGTGAAGTCCTTGCTCCAAGGTGAAGTCCACTGACCCTGACTGCCCAGCCTCCTGGATCAAGCCCTGGCTGACCTCTTGACCTCATAGCTGCCCCTGCACCCCTCTCCCTCCCATGACACTGCACAATGATGCGCCGCCTCCCACCCCCACCCTGGGCGAAGCCTGCTCCTCTGGCTGTGTCACAAAGGGCCTCTCCTTCCCCTCCTCCTCCTTTGCCCTCCCACTTCCCTCCTGCTCTTCCTCCAGGAAGGCTGGAGCCTCCCTGCTTCTCCCGTCACAGCCCCGCCCCTGCAGGATGTTCACCTGCTTGCTGCATCTGTCCTCCATCAAGCAGTGCGACCGTGTGCAGGAACTGGGCTCCTACCGTTCACGGGTCCGCCCCACGCTGGGCTCACCATGGGAGCCAAGACGGAGCTGATCCGTGATACATACTGTTTTTTGAAAACATGTATTAATGAGTGAATGAAAGGTGACTTGTATTTTTCATGCCTCTGAGTGTCCTCATGGTCACTGGGGATCAGATTCACACACCATTACGGCTTGGGGGGTCCACAGGGGGAGCCAGGCTGCTACTTTAGAAGGTAACCTGTCTGTGATCCATGATCAGGTGACTGTATGTCCTGGCTTGGCTGGGAGGGTCCTGTGTTGGGTGTATTTTATTAACAGTGCCTCTCTTCTTCTTCTTGAGAGTGTCCTATTTTGGAAGATCAACCACCTGGTCTCCAGATCCTTGATCAAGCCAGGCCTGAACTCCATCCTTGACCTTCCTCCTTCATCCTTGACCTTCCTCCAGCTGCCTGCTCACTCACCAAGGAGGCTGATCGGCACCTGCTCCCCTCCTACCACGTGCCACAGCCTTACACTCACACCCTCCCCCGCCTCCTGCCCACAG
Seq C2 exon
CTTGCAACTGCAGCGGCCACTCTGAGGAGTGCACCTTTGACCGGGAGCTCTTCCGCAGCTCAGGCCACGGTGGCCGCTGCCTGCACTGCCGTGCCCACACAGCTGGGCCGCACTGCGAGCGCTGCCAGGAGAACTTCTATCGCTGGAGCCCGCAGACGCCCTGCCAGCCCTGCGACTGCCACCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017473:ENSBTAT00000023245:4
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=WD(100=94.7)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=84.4),PF0005319=Laminin_EGF=PU(13.3=9.4)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development