BtaINT0010524 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018137 | A2M
Description
Bos taurus alpha-2-macroglobulin (A2M), mRNA. [Source:RefSeq mRNA;Acc:NM_001109795]
Coordinates
chr5:101331021-101331608:+
Coord C1 exon
chr5:101331021-101331197
Coord A exon
chr5:101331198-101331520
Coord C2 exon
chr5:101331521-101331608
Length
323 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TTATGAACCTTTCACTCCAGGTT
3' ss Score
7.62
Exon sequences
Seq C1 exon
GAGACATATTAGGCTCTGCCATGAGAAACACCCAAAATCTCCTCCAAATGCCCTATGGTTGTGGAGAACAGAATATGGCCCGCTTTGCCCCTAACATCTATGTTCTGGATTATCTAAATGAGACACAGCAGCTGACTGCAGAGCTCAAGTCCAAGGCTATCCTCTACCTCAACACTG
Seq A exon
GTGAGTGACTGAATAAGTGCATGAAAACTTTGCAGTGTTATTTTAATAACAGACTGGATTATCCAGTAGGCTTGAGTTACTTATCCATTCTATGATATGTAAATGTATCATTCTAGGATATTTACAATAATAAGACTACTATGACGGTCAATTTCATGGGACCTATCCAGTGTCCAACCTCCAATAAAATGTTTAGGACTCAGAACCATCCAACATATTGCAGCAAAATTTAGGGAATAGCACAAGATGCCAGGGCGTTTTGATGATTTGTCTGGGCATGCAATGTACAATCTTTCATGTTGCTTATGAACCTTTCACTCCAG
Seq C2 exon
GTTACCAGAGACAGCTGCTCTACAAGCACTTCGATGGCTCTTACAGCACCTTTGGGGAGCATCGTGGCAACAGTGAGGGCAATACTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018137:ENSBTAT00000006167:25
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:
PF105694=Thiol-ester_cl=WD(100=51.7),PF076789=A2M_comp=PU(0.4=1.7)
A:
NA
C2:
PF076789=A2M_comp=FE(11.3=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:
GCTCTGCCATGAGAAACACCC
R:
TATTGCCCTCACTGTTGCCAC
Band lengths:
249-572
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]