BtaINT0084283 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011412 | LAMB1
Description
laminin subunit beta-1 precursor [Source:RefSeq peptide;Acc:NP_001193448]
Coordinates
chr4:49318167-49323228:-
Coord C1 exon
chr4:49323165-49323228
Coord A exon
chr4:49318370-49323164
Coord C2 exon
chr4:49318167-49318369
Length
4795 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGC
5' ss Score
6.31
3' ss Seq
CTTCTTGGTGACCTTCGTAGATC
3' ss Score
6.35
Exon sequences
Seq C1 exon
GTGATATTTCGTGCTTTAGATCCTGCTTTCAGAATAGAAGATCCTTACAGTCCAAGGATACAGA
Seq A exon
GTAAGCCTGTTTTCAAATAAAAGCTTGGATGGAAAACAGCAATCATGGGAGAAAGTTTACCCAGACCACTGCTACCCAGAATCTAAATACTCAGTGCTAAATCCACCCTCTTCATTTCCTTCTTTCTCTGCAGTGCTCTACCAGAAGCTCTTGAAATTGGCAATAATCAAAGTCCTCACTGACAGGAACATATTTTGATAAGAGTAAAAGGTTGATGTCATAAGTCCTCAAACCATTATGCTGGTCATATAATACTTTATTTACTTTTTTGTTATATATATGTATGTATGTATGTATATATGTATATAAAAATAACATATGTGTGCTAAATTTCTTCAGTCATGTCTGACTCCTTGCGACCCTGTGGACTGTAACCCACCAGGCTTCTCTGTCCATGGGATTCTCCAGACAAGAATACTGCAGTGAATTGCCATGCCCTCTTCCAGGGAATCTTCCCGACTCAGGGATCAAACCCAAAGCTCTTAAGTTCTCCTGAATTGGCAGGCAGGTTCTTTACCACTAGTACCAACTGGAAAGTCATATATGATATTTGTGTGTGTGTGTGTATGATACATTAATATATATCCTATATATTATGTGTATACGTATATAATTATGTATATGTATAATTAAGGCTTCCCTGGTGACTCACCTGGTAAACAGTCTGCCTACTAATGCAGGCAGACAAGAGACATGAGTTCAATCCCTGGGTTGGAAAGAGACCCTGGAGAAGGAAATGGCAACCTGCTCCAGTATTCTTACCTAGAAAATTCCATAGACAGAGGAACCCATGGGTTTGCAAAGAGTTAGACATGACAGAGCTCACATGCATAATTAAGGTACAGGTTAGCTTCCCTGGCAGCTCAGTCGGTAAAGAGTCTGCCTTTAATGCAGGAGACCTGGGTTCAAACCCTGGGCTGGGAAGATCCCCTGGAGAAGGGAATGGCAACCCACTCCAGTATTCTTGCCTGGAGAATCCCATGGACAGAGGAGCTTGGTGGGCTATAGTCCATAGGGTTGCAAAGAGTCGAACACAACTGAGTGATTTTCACTTTCACTTTTAGGATGTTGCTAACAAAGTGTCCCCCAAAATGCAGCATCTCAAACAAAAAAGTTTATTTCTCTCTTACAGAATTACCCAGAGGGATTTCCAGATAAAGTACTTTTCAACCTGCCACAAGCAAGCAGTCTTACCAGATAAAATACAGGCTGAAACCCTGTTCAATATGAATTTTCAGACAAATGATAAACTATTTTTTAGCATAACTATATCCCCTGTAGTATTTGTGACTAGTATGAGCATATTTCATGCAATATTTGTGGGTGAGGAAAACCATGTCTCATGTGGTATTTGGGGCATATTTGTACCAAAATGATTAGTTGTTTATCTGAAATTCAAATGTAACTGAGCACCTTGTATTTTTATTGCTAAATCAGGCACTTGTAGCCATTAGATCACCTAGGTTCCCAAGTTTCTTGTGGCTTATAGTCTGTGCCCACATGGTGAGACCTGGAAAAACCTCACCTTATCCTTGTACCAACCTGCAAGAGGGGGCAAGTAAAAGGCAAGTGGCTTAGAAGCCATACATCACATTTGTTCACACGCCATTGGCCAAAGTAGTCCCCTGGCTACACGGCAGGAGATGCTGGGAATCCTCTCTGGCTGGTGGCTGTGTGTGTTCTCAAACTCTTGGCCAGGGCTCTTATTGTCAGAGGAAGAAGAAAAGAAAGAATCCTGGGGGAAATCATGGGTCTCAACCTTGCTTAATATGATCAATGAGGGTTGTAGTTCCATTTTCCAGATGAGTCAACTGAGGCTTAGAGGGTTGGACTAACATGCACAAAGTGACTTGGCTATTTAATGTCGGATCCTAAGTGTTCTTGTTATGACTCTTAGTTCAGAGGGCTTTCCATTGTTCAGTAACCATGCTTATGTCCTCACAAAAATACAATTTGATCTTGGGAGGCAGAATGTGCACTAATTAAAAGAATGGGCTTTGGAGTCCAACAGAGCTGGGTTTAAGTTCTAGCTCCAGTATATTCTGTGATCTTAGGCAAGGAATTTATTTAAAACTTTTCTTAGTCTTTATTTTTTCATCTGTAAATGGAGATAATCATATTGACCTTTTGGTTGTTGTGGAAGGAAAATGAGTTAATATATATAAATGACTCACCAAAGCGCCCGACACATAGAAAGTGCTGGATCCGTGAAGCTGTTGCCACTCTTGTTGCTGCCTTCAGCTGTCACTCAGACCTTTTCTAGACTGGGTCCCACACCTCAGAGCGAAGGTGAGGCTCCCTCTCTCCAGCTGCTGAGGTGCAGTCAGCTGAGCAGAGTTGGGGCAGGGTCTTGCTGGTCTTCCCCTAATTTGAACCAAGCCCCCATGGCGCGCACACACATCCTTACCCCCCAGCTCACAGCATGAAAGAGTAGAATTGAAGGACTCCAGGGAAGATTGCCATGAAAGTACTGTTTCCCCACTTAAATTAATTTTTCAAGTGGCCCAGATCATCTCTGGTCCAGAATTTATTCATCCTATCATCAAACACATTTTTTACATGTTTAAATTTTATTAAAAAAATATTTTTATTGGAGTACAGTTGGTTTACCTTGTTGTATTAGTTTCAGGTGTACAGCAAAGTGTTTCAGTTATACATATATTCATTATTTTCCAGATTGTTTTCTCATATAGGTTATCCCAGAATATTGAGTAGAGTTCCTTCTGCTGTATACAGGAAGTCCTTGTTGATTATCTATCTTATATACAGCAGTGTGTGTACGTTAATCCCAAGCTCCTGATTTAGCTCTCCTTCCCCCCACCCCCGCCCCGCCATGTTTCCCTTTGGTAACCGTAAGTTTGTTTTCAAAATCTGTAAATCTTTCTGTTTTGTCAATAAGTTCATTTGTATCATTTTTTAAAATTAGCTTCCACATATAAGCGATATTCTGTCTGACTTCACTTAGTATAATATCAAATATTTAATGGCACGTTCAGCCTTGTGCCATTTCTAAGTGTGCTCTGGGAGACCTGTGCTCCCTGCTCTCAAAATCCAGTTGCGAGAAGTGTCTGCACACGTTCCTTGACCAACACTTCCTGGGTCTCTCAATGGACTCTTAAGTTTGTTCCTTTTGGGTGGTACTTGTTTTACTTGGGGAATGTGCTGCCATTAGAATTCTATTGTGTTTGCTGTTCAATGGCATCAGAAAACCTATTTCTATATTAAACAAGCATCCATTGTAACAGATCATGCTTTGGATTTACTTTGTGATCAAGGGAACAATATCTCTTTAGCTGTCCCTATTGTTCTGAGTCCTCTGAGACTCACTTCAGAAGTGATTGTGCCTCTTACAACAGCAATCAATTTGAGGCTTAGATGTCGTTAAATATGGCAGGAGAGCTCGAAGGGAGCACAGTTGCTCTTCTGAGGACTTCCACAGAGATCAGCTCAAGGGTTTCTAAATACTCCAGCTGCTCTTCAAGTTTGTTTTTTGGCCTCTTGTCAATAGGCACTTGTGCTCGTTCTGTGCAGGAGAAAATGCTGGCATTCAGAAATTCCATTCAGCGAAGTAGTACCACAATTTCTCTGTTTAGTTTTTGCTTTTACAAAGAGCCTAAGTTGAATGCATGGCCTCATAGACTTTCTCTTTCAACCCACAGCTATTTCTATAGTCTTCATTGTATGCCGTGCATATGTTACAAGTATTTAAAATTGTATCTAGGCTTTGAAAGTATCTGATGTATTGGGCAAATGCCCCATTGTCCTGTGTTGTAAATTGTAAGAATCCATCGACAGAAATGAAAGAAAAGCTCAGAAGCAGTTTCAGGCTATGGAGCTAAAAGGGAAGGGCAGGTAGACTGTTTAGTAACTCATGTTTAGCAACTTAGTGGTTAATGAAAATACTGATGGAGAAGGCTATATGACTGTTGCTTTATCAAGTTACTAGAGAATGTAATTGACGGCCCCGCTTCTGTAATAAGCATTGGTCTGTAAACCCAGGAAAAGGAAGGAAAGTTCAAATAAGAGACATTTCTCTACAAGAACCTCTATTTAGGAAAGCAATCTGCCCCAACATCCCAATACTAAACTCCTTTATCTTCATGCTACTGTATTATATTGGTAATTATATTGGTAAATTGTATTGTAAAACAAGGATCAAAAAAGGTGTAGGTTGTAATGGTGCTTCAAAACTTGTTTGAGATGGTCAGTCCCTTGATTATGGTTATCCTATCATGTCAAATCGATTTTAGTAACTTGTATTTCATCTGATTGGTGGGAAATTTCAGGTAGCATTTTTTTCCCTCCAGAAATAAACACAAACATGTTTTCTAACTATCTTACAATAATAATGACAATTAGGGTGCTTTGATAAATTCTTGCCCACCTAAATGGAATTTTCTGATTTTGAGACTAACACTAGTTGCTGTGGGAACCCGATGGTATTGCAGTAGTGTAGATTACTGTGTGCCAGTGGCTTCTGGCAAGCATGCAACTGCATTCTTAAATTTCTCTACTTTCACACTTCTTTCTGCAACATCAGTCTGCCAACAAATCCATCACAGAATATATGTTCTTGCTAAATGGTGATGAGAAGAGAGTAACCTTTCTTCCAGAGACTGTCACTTTAGGCTAAACTTTATTATTACATGCATCTAGATCATGAAAGGGAAGTAAACTTTACATAAGCTATTTTTATTTGTCATGTGTTTCTATAAAGAAGAAAAGTGTTGTCTTAATTGCAAACAAAGTCTTGCTTCTTTGATCAAACTTTTCATCTTCTTGGTGACCTTCGTAG
Seq C2 exon
ATCTCTTAAAAATTACCAACTTGAGGATCAAGTTTGTGAAACTACATACTTTGGGAGATAACCTTTTGGATTCCAGAATGGAAATCAGAGAGAAGTATTATTACGCGGTTTACGATATGGTGGTTCGAGGAAACTGCTTCTGCTATGGCCACGCCAGCGAGTGTGCCCCGGTGGACGGAGTCAATGAAGAAGTAGAAGGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011412:ENSBTAT00000015166:6
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:
PF0005512=Laminin_N=FE(8.9=100)
A:
NA
C2:
PF0005512=Laminin_N=PD(18.3=63.2),PF0005319=Laminin_EGF=PU(35.5=32.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
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]