BtaINT0010523 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018137 | A2M
Description
Bos taurus alpha-2-macroglobulin (A2M), mRNA. [Source:RefSeq mRNA;Acc:NM_001109795]
Coordinates
chr5:101330650-101331197:+
Coord C1 exon
chr5:101330650-101330733
Coord A exon
chr5:101330734-101331020
Coord C2 exon
chr5:101331021-101331197
Length
287 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGT
5' ss Score
8.83
3' ss Seq
CCATCTCTCCCATTTCCTAGGAG
3' ss Score
9.08
Exon sequences
Seq C1 exon
GTGCCAAGGTGTCTGAATCATTATCTCTGAAGCTGCCACCAAATGTGGTGGAAGAATCTGCCCGAGCCTCCTTCTCAGTTTTAG
Seq A exon
GTGAGTCTCCAGCCCTAGGGGACTATAGGGGACTAGTGAACGGTATTAGACAATAGCTACTATTTTTTCCATAAATATTTTCTGAAAATAACATCTAATTTTAACTTCTTTGTTCTCTTCTCCTTTGGACTTATTTATTGCTTTTAATCATACTTCTATTCTTAAAAGACCCACCCTTCCTAAAAATCCTCCTTTCTTTACCTTAGCTAATTATTCATTTGTTCCTAATGATTCTGATACATCATAATCTATAAATTTTATGACTTCCCATCTCTCCCATTTCCTAG
Seq C2 exon
GAGACATATTAGGCTCTGCCATGAGAAACACCCAAAATCTCCTCCAAATGCCCTATGGTTGTGGAGAACAGAATATGGCCCGCTTTGCCCCTAACATCTATGTTCTGGATTATCTAAATGAGACACAGCAGCTGACTGCAGAGCTCAAGTCCAAGGCTATCCTCTACCTCAACACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018137:ENSBTAT00000006167:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.172 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF105694=Thiol-ester_cl=WD(100=51.7),PF076789=A2M_comp=PU(0.4=1.7)
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:
GTGCCAAGGTGTCTGAATCAT
R:
CAGTGTTGAGGTAGAGGATAGCC
Band lengths:
261-548
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]