BtaINT0084279 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011412 | LAMB1
Description
laminin subunit beta-1 precursor [Source:RefSeq peptide;Acc:NP_001193448]
Coordinates
chr4:49263885-49265786:-
Coord C1 exon
chr4:49265610-49265786
Coord A exon
chr4:49264045-49265609
Coord C2 exon
chr4:49263885-49264044
Length
1565 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
ACCAAAATGTGGAACTGCAGACT
3' ss Score
2.15
Exon sequences
Seq C1 exon
ATAGAGTCTGAAACAGCAGCTTCTGAGGAAACTTTGTTCAATGCCTCCCAGCGCATCAGCGAGCTAGAGAGGAATGTGGAAGAACTTAAGCGGAAAGCTGCCCAGAATTCTGGGGAGGCAGAATATATTGAAAAAGTAGTATACACTGTGAAGCAAAGTGCAGAAGATGTTAAGAAG
Seq A exon
GTAAGTAGAGCTTTGTTACTGCACAGCTGTGTGAACAAGGGAGCAAGCGCTCTCCTCCAGGCCTTCCTTGGAATGGTTATTCATCAGAAACATCTTGGGTGACCTGTTTTGAAACAGCAGTCTTTAAAGACAAAGATGGAAAAGAATGGGAGTGGATATGAAAATATCCATACATGAGATGTAGGCCCTCAAATCCAAACTTGGATTAGGGTTTAGAAAAATGAAATTAATTTAACAAGCATATTGAACTTATATTTCAATTAGGAAGAGCTTTATGGCAAACAGTAAATTACCTGTTCATTTGAGAAATCTTTTAAAGCGGGGTAGAAAATGCTTAAAGAATCCCTAGACAACAGCTGGTATAGAACCGTATCTTACCTCTTCTCTGCTCATTTGGAATTAACCACCTCTTCCCTCTAACTGGAAGGTACTATATTTTGCAGAGGAAAGTCTCAAGCCCCCATTTTTCACTAGAAGCCAAGTAGTCACTGAAACACATTTAATTTTTAAATTTGTGTCAGTAAATATTTATCACTAAAGAAACCTTTTTAAACTTTTCAAGGGAGTGTTGAAACTCTTAAATGAATAGTAGGAAGCTATAAACTGAATGAAATCAAGACTTTTCCTTGAAGCTACTATAGTTTTTAGGCATTATTACAGATAACTTCCCTATACCTTAGTCAACGGTCCTCCCACTTTTTTCTGATGTCTAAATATTTGGATCTCAGCACACCTACGTTTGAGAAAATCTATTTCTCTAACTCTCCTTCCATGAATTTTCCTACAACACCTGCAAAGAAAAAGCCTGTCCCCCAGGGACCTACAGGAACTCCACCATGTCTTTGACATATTTTCATTTAAAAAAATCATGTCCGGAAAAAAACTCAGTCATTTGTGGAGACATGGACGGACCCAGAGACTAATACAGAGTGAAGTAAGTCAGAGAGAGAGAAAAAAAACGTTGTACATTAACACATAGATGTGGAATCTGAAAAAACTGATATAGACAATCTTATTTACAAAGCAGAGAGATACAGATGTAGAGAACAAACGTATGGATACCAAAGGGGAATGGGGAGTTGGGGGTGAGGTGAATTGGGAGATTGGGATTGACATGACATATATGTACTATTGATACTGTCTATAAAATAGATAAGTAATGAGAACCTGCTGTATAGCAAAGAGAACTCTCTACTCAGTGCTCTGCGATGACCTAAATGGAAAAGAAATCCAAAAAACAGGGGATACACACATACATACAGCTGATTCACTTTGTTGTATGTACAGTAGAAACTAACACAACCCTGTAAAGCAACTCTATTCCAGTAATAACTGAAAAATATAGAAAATAAAAATTATGTCAATATTATATCTAATTATACCATTTCAAGTTAATGTTTTCAGTTACTTACTCTTGCGTAGCTTGAAACCTGAGTACCTGTGGTGATGGCCTTTAATTCAGAATGCTGGCTGTGCAAGTTAGCATCTATGTGATCTAATATTGCCACAATTATATTACTGACACTAACATTATTACCTTTTTTTACCAAAATGTGGAACTGCAG
Seq C2 exon
ACTCTGGACAATGAACTTGATGAAAAGTACAAGAAAGTAGAAAATTTAATTGCCAAGAAAACCGAAGAGTCAGCAGATGCCAGAAGGAAAGCAGAAATGCTACAAAATGAAGCAAAAACACTTTTGGCTCAAGCAAACAGCAAACTGCAACTCCTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011412:ENSBTAT00000015166:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.373 A=NA C2=0.130
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:
AGAGTCTGAAACAGCAGCTTCTG
R:
TTTCAGGAGTTGCAGTTTGCTG
Band lengths:
334-1899
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]