BtaINT0084270 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011412 | LAMB1
Description
laminin subunit beta-1 precursor [Source:RefSeq peptide;Acc:NP_001193448]
Coordinates
chr4:49276000-49279125:-
Coord C1 exon
chr4:49278756-49279125
Coord A exon
chr4:49276047-49278755
Coord C2 exon
chr4:49276000-49276046
Length
2709 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
ATTTACCCTTCTCTTTACAGGAA
3' ss Score
12.45
Exon sequences
Seq C1 exon
CCTGTGACTGCGACCCCAGAGGCATCGAGACACCGCAGTGTGACCAGTCCACTGGCCAGTGTGTGTGTGTGGAGGGCGTGGAGGGCCCACGCTGTGACAAGTGCACCCGGGGCTACTCGGGCGTCTTTCCCGACTGCACACCCTGCCACCAGTGCTTTGCTCTTTGGGACGTGATCATCGCTGAGTTGACCAACAGGACCCAGAAGTTCCTGGAGAAAGCCAAGGCCTTGAAGATCAGTGGTGTGATTGGGCCTTACCGGGAGACTGTGGACTCGGTGGAGAAGAAAGTCAACGAGATCAGAGACATCCTGGCCCAGAGCCCAGCTGCCGAGCCACTGAAGAACATCGGGAATCTCTTTGAGGAAGCAGA
Seq A exon
GTAAGTAGTTGATAAGCCAGAGTAACAGCTCACGATGTTGTTTCAACTTGGTGAATCAACAGCACGGTGCTTCCATCAGGAGGGGTGGTCAGTGCTGTGAGTGAAAATAGATGCTGGGCATTCATTTTCTGGCAGTCACTGCTCTGGGCTTGGGGGCAAATGGACCCAGAGTTGTGGGGACTGCAGTGCAGAATGTGTACACGTTATATTCAGCACTTTTCTCTGCAAACAATAACTCTTTGGCAGTAGAAGGTCTGGATACAGAGACAAAGGATCCATAACAGTCACAACTGGGTTACTTGCTAGGCTTGTGAACTAAAATGACTCACACACTTCCAGGCCTCCCTTCTCACCTGCGGCGGAGGGGAGGATACTCTTAACTTTTTCCTTACAGAGTAACAAAAGGATTAATCTATGAAATGGTAATGTAATTGCAGAAAACATTATAAATATAAGTTGTTGTCATATGTTTTGCTACTTCCAGGAAAATTCCATTACCACAAGTAAGACTTCTATTTCTAGGTTATTTCTACTGCTCAGCTATTGGTCCACTAGAGCTGTGCTTCATTCATCCAATTTTAACAGATTCCCTACGATGAAAATTCCTCTTCTTAGTCCTTCTCTGGGCAATCATATCTCTGATTGGAGAGAGTGTATTTTGCCAGTGAAAGCAGAGAGAATTGAGCTGAGTGATGCTGAACTTTTATGAGATTATTTTTTTCCCATTTCTCCCAGTTATCTTTCCTGTTCTCAAACATTCCAACTCCCTTTGCCAGAAAGGACCCCCAAAACAGCAAAATAAGATCTAGGCTAAAGGACAAAACAGGAAAGGATATGGAGCATTTGTGCTTCTCCAAATGCTATGAGTTTTTATTATAGATTCCCCATTTGGCAGGAGCAGGGGCTTTGTTTCATGGCTAAATCCTATACATTCAGGCAATAGTACATTATGCCAGAACTACAGGAGCAATTTTGTGTGATGGTACTTTAATCAGCATCTCTAAGAAGTCAGACGGACTTTTCATTCATCTCCACACTGTGTACGAGAAGCAGGAAGCTAACAGCTGACATTAGCTCAAGTACCTTGTAGGAGGTCCTTTCAACAAATTCTAGATTTAAAGTAACTGGTCCCTTGACTTCAAGCCTCAGATCTTGTGCCCAAGATCATGTGGTTGATCAGGGTGTTAGGAGATGTCTGATGTGAGGCGATAATGCATTTAATGAGGAATTTTACCTCATTAAAAAAAGACCACAGTACAGCTCAGCCTTCTTACATGTAGCGATAACAAGCCTTAAAAGGCCCTGGTCTGAATGCAACCCCATTTAAGAAACGATTCTTGACCTTGGCGTCATGCACCTTAAGGGAGAACAAAAAACTCTGGGATCCTTCGGGAGCCTGCCAGAAGAGCGATTACATTCCACTGGCAGCTCTGGTTCTACCTTCGCTCTTCATCTAATCACACAGATTGTAATCATCTCAGGAAAACTAATTTCATTAATCTATTTCCAACACAGTATCCAAGGATGCATGTTTTAGGATCCTGAGTGGCATTATTTAAAAATCTACAATGTAAGGTGTTTTTTTTTTTTTTTAATTATAACATTATATGAGACCTGAGGAGAAATGAAAGCCTTCTGGGAATCAACAGATTAATAAAAGCAAAGCACTGGGAAAAAAAGAAACTAGCCTCAGGTCAGGAAAAAAAGCCATCAGGTTTACAAAATGTAATTTAACCCACAAATCCTTTTAAGCACTTTTCCTTTGAGTTGGGTCATGGTATTATCTCAGCCTTAAATATCATTTTTCAAATGGCCTCCAACCTTTCAGCATCTCTACATTTTCCCAGTTTTTTATATGATTATATCCCTGAGAAGACAATTACACTCCATTAGGTGATACCCAGAGCTGAGGTCTTCATGATTTGCACTTTCTTTGTGATATGTACACACCTGCGCACTGCATATGCGAGTAATTTACAAATAGATGCCTAAACTACAGCTTTGGAGACAGAAGATACAGAACAAAGGCAGTTGGGTTTGCATTCCAAACGAAATATTGTGCAAAGTAAACGGTTATCATATTCCATCCTCAGTGATGCTGCTTTCTTTCTCAGGAAAAATGAAAGGGTTGCTTTGTTGGTGGAAGGTGGCTCCTTTGATGGGACTTTGTCTGAAGGGGGGTGTGTATGAAAAGCTTCTTTGCCTTGTTCCCACTGTCTTCCTGGTGGCCATGGGGCTTTCTTTCTGCATGTCTTATCTTGAAGGAGATCCCTGAGGTTCAGATAGGAGTGTTTTTGGCAGGTGACTGGGAGCCATAATTCTACATGGGAGTCACTTATGTCTTTTGAGTTTGTGGAATTGTATGGGCTTGCAGCTGTTTATGTTACAGAGTGGGACGCATGCTCTGGATCTGTGCTCATGTTACATCAGATATTGAGAATCCCTCAAATAGCCCATCTGTCACAACACAGCTGAGTGGAACTGCTGTGTTTTCCTTCAAAGCGTTGAAGAAAGAAAAATCATTAGATTTAACATAATCTCTTAATGATAAGATTAAAACCAGTACTTGAAGATGAACTGTTATAAACTACTGAATCAATTTGAAATTACAGAGTAATGGATACAGTATTAGGGGAAAATGTAAAAATGAGACTTCTCATTTTCCCTTGACTTTCTTGCCCTTAAGTTCATTTACCCTTCTCTTTACAG
Seq C2 exon
GAAACTAACTAAAGATGTCACAGAAAAGATGGCACAAGTACAAGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011412:ENSBTAT00000015166:24
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=0.353
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(0.1=0.0),PF0005319=Laminin_EGF=WD(100=41.1)
A:
NA
C2:
NO
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]