BtaINT0010531 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018137 | A2M
Description
Bos taurus alpha-2-macroglobulin (A2M), mRNA. [Source:RefSeq mRNA;Acc:NM_001109795]
Coordinates
chr5:101340932-101341427:+
Coord C1 exon
chr5:101340932-101341150
Coord A exon
chr5:101341151-101341299
Coord C2 exon
chr5:101341300-101341427
Length
149 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
GATTTTTCTCTGTTCCACAGACA
3' ss Score
10.13
Exon sequences
Seq C1 exon
GACACAGTGGTAGCTCTCCACGCCTTGTCCAGATACGGAGCAGCCACTTTCACCAGCGCTAGGAAGGCTGCACAGGTGACCATCCAGTCTTCAGGGACATTTTCCACAAAATTCCAAGTGGAAAACAGCAACCGCCTGTTACTACAGCAGGTTTCATTGCCAGAGGTGCCTGGAGAGTACAGCATGTCAGTCACAGGAGAAGGATGTGTTTACCTCCAG
Seq A exon
GTGAGATTCTGGGCACAGAAGATCCAGAGTCACCACGGTCAATGAAAAGTCGTAACTCAGTGAACGATGGCGCAAATGAGAGAAAGGGTTGAGGTATCTGGGAGGAGTCCTGGAGAAGGAAAAATCACAGATTTTTCTCTGTTCCACAG
Seq C2 exon
ACATCTTTGAAATACAATATTCTCCCGAAAAAAGATGAGTTCCCATTTGCTTTGGAGGTGCAGACTCTGCCCCAAACTTGTGATGGACCCAAAGCCCACACCAGCTTCCAGATCTCACTGAGTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018137:ENSBTAT00000006167:31
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:
PF076789=A2M_comp=PD(5.1=17.8)
A:
NA
C2:
NO
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:
CTTTCACCAGCGCTAGGAAGG
R:
CAGAGTCTGCACCTCCAAAGC
Band lengths:
242-391
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]