BtaINT0084083 @ bosTau6
Intron Retention
Gene
ENSBTAG00000027181 | LAMA3
Description
laminin, alpha 3 [Source:HGNC Symbol;Acc:HGNC:6483]
Coordinates
chr24:33213501-33215652:-
Coord C1 exon
chr24:33215544-33215652
Coord A exon
chr24:33213599-33215543
Coord C2 exon
chr24:33213501-33213598
Length
1945 bp
Sequences
Splice sites
5' ss Seq
CTGGTACGC
5' ss Score
8.06
3' ss Seq
TTCTTATATTTGTTGGACAGCAT
3' ss Score
4.74
Exon sequences
Seq C1 exon
CGTCCTCTGCCGCAGCGCTGTGACCGACGGCAGGGGTCGCCTCGCCGTGTATGAGCTCTTAGCAGATGCGGACGTTCAGCTCAGAGCCCGGATGGCCCAATTCCTTCTG
Seq A exon
GTACGCTTCTGTTTCAGCCACTGATTTTTAGAGATTTTTTTTTTATTGATAAGCATATATATTTCTAAAGCTTATTGAAGTTTTGGCTGGGTTTGCATTACATCTATAAAGTTAACCTGCGGAGAATTGCTGGAGTTACAATGTTTATTTTCCCATCTAGAAATGTGTCTTGCTCCTTCATTTGTTGGAACCTTTTCCTATAGCACCCAATAAAGTTCAGTCATCAGATTTGAACATGTTTCACAAAACTCCATTTAATTCATTTTTATTTGTTGTTACTATTATGAATGAAATATCTTTTGTCATTATATCTCCTAGTCTATTATTATTGCTGGTATATAAAAATGTCATTAGGGACTGTTTATTTTCTTTCCCCTCTACTATTTTATTATGTCTGTTAGCTTCTTTGGGGAGAAGGCAATGACACCCCACTCCAGTACTCTTGCCTGGAAAATCCCATGGACGGAGGAGCCTGGAAGGCTGCGGTCCATGGGGTCGCTGAGGGTCGGACACGACTGAGCAACTTCACTTTCACTTTTCACTTTCATGCATTGGAGAAGGAAATGGCAACCCACTCCAGTGTTCTTGCCTGGAGAATCCCAGGGACAGGGGAACCTGGTGGGCTGCCGTCTATGGGGTCACACAGTCGGACACGACTGAAGTGACTTAGCAGCAGCAGCAGCTTCTTTGCAGATTCCTTCAGAATTTTCAAGGTTGCAGTCACCTGGTATTTTTTTCCAGACCATTGTTGCTCTGTTTCAAGAAGAGTATTTTCAATTAATTAGATATATATTGTTAACAGTTAAAATGCTAGCTTTTACAGATTAAATACCCTTTTAATAGCATAACTTTAGTATTGAGAATTGTGATAAACAGAGACAGTGGGATCTGGGCTAGGAATGGGGTGCTCAGATTTATAATAAATATCTCAGGGAACATAAGATTAAGTATGAAGCAACTTCCTGTTACTGCTAATATTAAGCATGTATCACACCTGGGAAATGCCATGCCAGCCTGTTCTAATATGTTTTAAATTTATTAGAAATGTTGAGCTTTCTCTTAAGAACTACCTGGAATTCAGTTTTTAAAAATTATTATATGTTATATAACTCAAGACTTTTCTTTTTTTTAAGGATGACTTTCTTTTTTGAACATAATGAGCCAAGTGAATCTTAACCTTTTCATCTTTGGAAATTGTGATGGGGCTGAAAGTTCTTTTTTAAGCATAAGTTTGCCCTTTCTGAAATAGTCAGATGTCATTCAGAGTCAAGGCTGGCTAGAATGAAAGCTCCATGAAGGCAGGAGTATGTCCATCTTGGTCTCATACGATCCCCCAGTCTCAGTGCCTGGCATATAGTAGGTGTTCAGTTAAAATTTATTGTTACTGAATGGCTTTGTGATATAGCTGGTTATAGTTATTGATTTACAATGAAAAGTGGTATTAAGTTATTGACTGAGTTTCTTCTGTGACTCAGAAACTAGCTCTGGAGACAGAGTTCAGATATGCCTGCGATACGAGTCCTCCTCTATTGAGAAGGGTTACTTATAGCAGGAGCATCCATCTTTCTGAACAGCAGGCTCCCCGACTGCCCACCACATCCCCCTCTCCCTGCCTAGGGGTCTGAGGAGCCAGCATCAGCCCAGGGCAGGAGAGAAGACACTGTCCAAAGTTGCTGACAGAGTTGTTTTAAACTCTTACATGATTTTATTTGTTTATATGATTATTCCAGGAACAATTTAATCAGTGATCCTGTATAACAGTAAAAAGAACTTGTGTCCATGTAATGATGCCATAGCGAATGCTATCCTATGATATTTACTGCTGTAAAGTGATAGTTTTAATTTCTCTGGATGAATTTTTAGCTGTTTTCTTTGAAGTGCATGTTTGGTCATAACCTTGACTTGGGTAATAACGGGCATGTACCTTCTTATATTTGTTGGACAG
Seq C2 exon
CATCAAATTTGTATCATACCCATTGAAGAATTCTCAACAGAATATTTGAGACCTCACGTCAAATGCATTGCCAGTTATGGGCGATTTGTTAATCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000027181:ENSBTAT00000060991:24
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=0.000
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:
CTGTGACCGACGGCAGGG
R:
CTTTGATTAACAAATCGCCCATAACT
Band lengths:
190-2135
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]