BtaINT0084078 @ bosTau6
Intron Retention
Gene
ENSBTAG00000027181 | LAMA3
Description
laminin, alpha 3 [Source:HGNC Symbol;Acc:HGNC:6483]
Coordinates
chr24:33285579-33286800:-
Coord C1 exon
chr24:33286683-33286800
Coord A exon
chr24:33285698-33286682
Coord C2 exon
chr24:33285579-33285697
Length
985 bp
Sequences
Splice sites
5' ss Seq
CTCGTAAGT
5' ss Score
9.63
3' ss Seq
TATTAACGTTTCCTTCCTAGATT
3' ss Score
8.98
Exon sequences
Seq C1 exon
CTTTTCCAGGTGGCCTATGTTTTAATCAAATTTGCAAATTCTCCTCGCCCTGATCTTTGGGTCTTGGAAAGATCTGTTGACTTTGGAAGCACCTACTCACCTTGGCAATATTTTGCTC
Seq A exon
GTAAGTAGTCTTACCCACCATGTTATGAGGGGTTTGAATTATTTACAGCAGATCAAGACTGTAGGTTTAACTAGAAAGTTACCCTTTCAGTGTGGTGCATCAGGGGCTGGTCTGTTTTAACTTTCTAGCTTACCCTCTGAACATCCGTTTCTCAAGCATGTGTGCGTGAGTACCAGGGATACACATGTATAACTGGGGTTGAAATACCTCTTACGATAATGGTTCTTGCTACTATTCAGGGCGAAGCAGTGTATCTGTAGGGCTTCCCAGGTGGCGCTTGTGGTAGAGGACTTGCCTGCCAATGCAGGAGACATAAGACATGCAGGTTTGATCCCTGGGTCAGGGAGATCCCCTGGAGGAGGGCATGGTAACCCACTCCAGTATTCTTGCCTGAAGAATCCCATGGACAGAGGAGCCTGATGGGCTGCAGTCCATGGGGTTGCAAAGACTTGGGGCACTACTGAAGTGACTTAGCATGCATGTATGCAGTGTATCTGTAACTGGGCCAGAGCTTCATTCCATTTCCTTTTATGTAGAACTATGAAGTAAGTTCCATCTTTATGGATCCTGCCTTTTCACGTTACTTACCTTGACCTTGTCATCTTCACTAATGAAGAATGTCTGAGTGTCTGAACCCTGTGATGAATTGAAGTGGACCGGAATCTTGCTATAAAGGCATTAGGTTTTCCAGGAATGCTCCTTAGAGGGTAAACTTGTCTAAGGAAGAGTGAAGATTTAGAATGAAATCTTCAGACTATTCCTGTTGAAAGTCGCAACAGGGCTTTCAGTGGCCAATATTTAAGTGGCCTGAAATGGCTTGGTTTTTCTTTCATGAATTAAGAATTTTATTCTAAGATTCCATCTAAATATCTTAAATGCTTCTCTGGTCTTTCCCTTTTTGTGTATTTTCTTAAAGAAACATAAGATTTAAGAAATTTAAAAGAGGACAATATTTTATTGTACAATATTAACGTTTCCTTCCTAG
Seq C2 exon
ATTCTAAAGTAGACTGTTTGGAACAGTTTGGGCAGGAAGCAAACAGGGCTATCACCCGAGATGATGATGTACTTTGTACTACGGAATATTCCCGGATTGTGCCATTGGAAAATGGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000027181:ENSBTAT00000060991:2
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(19.5=100)
A:
NA
C2:
PF0005512=Laminin_N=FE(19.5=100)
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:
CTTTTCCAGGTGGCCTATGTT
R:
TGGCACAATCCGGGAATATTCC
Band lengths:
222-1207
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]