BtaINT0084157 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008817 | LAMA4
Description
Bos taurus laminin, alpha 4 (LAMA4), mRNA. [Source:RefSeq mRNA;Acc:NM_001205965]
Coordinates
chr9:38784652-38786965:+
Coord C1 exon
chr9:38784652-38784794
Coord A exon
chr9:38784795-38786826
Coord C2 exon
chr9:38786827-38786965
Length
2032 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
AGACTGATTTTCTTTTCCAGGAC
3' ss Score
10.21
Exon sequences
Seq C1 exon
ATCTCAATCATTTACCACAATGATAAGAAAATGATTTTGGTAGTTGACAGACGACATGTCAAGAGCATGGATAATGAAAAGATGAAGATACCTTTTACAGACATATACATAGGTGGAGCTCCCCCAGAAATCTTACAATCAAG
Seq A exon
GTAAGCTTTTTTGTCCTTGTTAAGCTGTTTGTTCCTAACGCGCTGGGCTGAGGACTCCACATCCAGAAGTGTAGTAAGTGTTTGAGCCTTCCCACCTACTACTTCTGTGCACGTGTGCAAGGGCACACACACAGTCATACACCTGTGTGCCCTGTGCAGCCAGTCCTTGTGACCCCCTTAAATTAGCATCGGGTAAATGTGATCTACAAAAGTCTTCATGTATTACTCTTAGAACATAGTCTAACGCAGTATTTCTCATCCACAAGAAGAAAGGTGGAGCATATGTGAAAGCAAAGAAGCATTGTGTCCATTTACTTTTGTTTCAGTATTAATTTAGAGTTATTTGAACTCTCAAATAGTATCTGAGAGTAAACCAAAATTTTAAGACTGTTCCAGGAGTTGTGAATTAAGTATGTTGTTGTTGTTTAGTTAATGAGTTGTGTCCGACTCTTTTGTGATTCCATGGTTTGTAGCCTGCCAGGCTTTTCTGTCTATCAGATTTCCCAGGCAAGAATATTGGAGTGAGTTGCCATTTCCTCCACAAGGGGATCTTCTCTACCCAGAAATCAAACTTACGTCTCTGCATTTGCAGGCAGATTCTTTACTGCTGAGCCACCAGGGAAGCCTCATGAATTAAGTATGTGTGCATGTTAAGTCTCTTCAGTCGTATGGACTCTTTGCAACCCTATGGACGGTAGCTCACCAGGTTCCTCTGTCCATGGAATTCTCCAGGCATGAATACTGGAGTGAGTTGTCCTGTGCTCCTTGAGGGGATCTTCCCGATCCAGGGATCGAACCTGTGTCTCCTGCATTGGCAGGCAGGTTCTTTACCACTAGCGCTGCCTGGGAAACCCAAATTAAGTGTAATGAAATTTTATTCTGATATATTCAAAAATTCAACTATCTCTTATTACACTCAATTCATAGCATGAGAGATCCTAAACTGAGAGACAGCGTTAGGATATTCCGATATTCCAGTCCAGTCACTCTCAACCCTGGTTCTCATTAGAATGACCTAGAGAATGTGTATAAACATCACTACCCATGGTCATTCTCCAGAAATTCTAATTTTTCTTGGATAAGACCCCAACTTTAAGCTTCCTTTCCAAACTAAATATCCTCATTCCTTCAGCCATGCCACTTGGGATCTTTAACCATTGTGGTTGCTATATGTGCAACTTAATCTATCAGTTAGCATGTCATCCAGGCATGATCTTGTGAGAGCAGAATAAATGGGACTGTTACCCCTTAGTTTGGTCAGTGTTTATCTAAAATACATTGAAGTCATTGCAACTTACTCAGAATTAACTTCGTATTCATTCAGTATCCAATACTATGTTCTTGGGCACTTCCTATCTATTAGGCACAGTGATGGGTACTGTTTTGAGCAAAATGCCATCTTTGATCTTAAAGATAAAGGATTTCTCACTTTCCTATTGCTCCAAAGTCCCAACGTTCATTGAAAACTTCTCCTAGCCTTGGTTGATTAGTGTGTTGCAAGTAAGACAAGTAATTGAGTTCATGACTCAAGTAGGATTAGTGGACAACTGAAGACCTGGGTTCAAATCCTAACTTTCTACTTGTGACATAGGAAAAAAAAAGACTTAATATTTCATTTTATAGGTAAACCATGTGAAACTGCCAAGAGTTCACAGTTTTTGACCTATACATATGTCAATTCATTATGGTTGAACCTATTAATCATCTGTAAAAGAGAAAGAATAGCATCACCATCTAGCTCTCTGAATTGTTATAAAGATAAAATGAGCTGATGTAACTTAAAGGATCTTGAAAACTATAAAGAAGTAAATAAATTGTCTCCATGCAGAATAAAGCTGTTCTGTATGCAAAGATTAGAAATTACTGTGTACTTATGAAAGAAAGCATGAAAATGTGAATAATTACAAAGGTATTAAAAATAACTATAAATAAAATCAAATTTTACATCCTGCATATGTTGGGTGACATCATCATCACCTCTATCACCATCATCATCACAGCTCTATCAGTAAAGACTGATTTTCTTTTCCAG
Seq C2 exon
GACCTTAAGAGCACATCTTCCCCTAGATATCAACTTCAGAGGATGCATGAAGGGCTTCCAGTTCCAAAAGAAAGATTTCAATTTATTAGAACAGACAGAAACCCTGGGAGTTGGCTATGGATGCCCAGAAGACTCTCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008817:ENSBTAT00000011612:25
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:
PF0221019=Laminin_G_2=FE(35.6=100)
A:
NA
C2:
PF0221019=Laminin_G_2=PD(18.2=51.1)
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]