BtaINT0010529 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018137 | A2M
Description
Bos taurus alpha-2-macroglobulin (A2M), mRNA. [Source:RefSeq mRNA;Acc:NM_001109795]
Coordinates
chr5:101302076-101302447:+
Coord C1 exon
chr5:101302076-101302235
Coord A exon
chr5:101302236-101302394
Coord C2 exon
chr5:101302395-101302447
Length
159 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
GGAAAATATTTCTGTTTCAGTGA
3' ss Score
5.57
Exon sequences
Seq C1 exon
CTCCCAAGATCTCCAACCAGTCAAGAGGTAATGTTCCTTACCATCCAAGTGAAAGGACCAACCCAAGAATTCAAGAAGCGGACCACAGTGTTGGTTAAAAACGAAGAGAGCCTGGTCTTTGTCCAGACAGACAAACCCATCTATAAACCAGAGCAGACAG
Seq A exon
GTACAGAGGCCTATAGTCAGGACAACTTCCCAAAAGAAAGATCTTCCTCTCTTGCATGTTTCCCAGTCAAAGGAATTCTGGTTCCTTAATAGCTTGTCTTACTAACCTACGGACCTGGCATAAGGTTTCTGGGACTCACGGAAAATATTTCTGTTTCAG
Seq C2 exon
TGAAATTTCGTATTGTCTTGTTGGACGAAAGCTTTCACCCCCTGAATGAGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018137:ENSBTAT00000006167:3
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:
PF0183514=A2M_N=PU(17.0=29.6)
A:
NA
C2:
PF0183514=A2M_N=FE(18.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCAAGATCTCCAACCAGTCA
R:
TTCAGGGGGTGAAAGCTTTCG
Band lengths:
205-364
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]