BtaINT0010530 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018137 | A2M
Description
Bos taurus alpha-2-macroglobulin (A2M), mRNA. [Source:RefSeq mRNA;Acc:NM_001109795]
Coordinates
chr5:101339988-101341150:+
Coord C1 exon
chr5:101339988-101340211
Coord A exon
chr5:101340212-101340931
Coord C2 exon
chr5:101340932-101341150
Length
720 bp
Sequences
Splice sites
5' ss Seq
CAGGTCCGT
5' ss Score
6.47
3' ss Seq
CTCTCACCTGTCTCTTCCAGGAC
3' ss Score
11.85
Exon sequences
Seq C1 exon
ATAATACCATCCACTGGACACGACCTCAGAAACCCAGGTTGCTCACGGAGGACATTTACCAACCCAGGGCTCCGTCTGCGGAGGTGGAGATGACGGCCTACGTGATCCTTGCTCACGTCACGGCCCAGCCGGCCCCGAACCCAGAGGACCTCAAACGTGCCACGAGCATCGTGAAGTGGATCTCAAAGCAGCAGAATTGCCAGGGGGGCTTCTCCTCCACCCAG
Seq A exon
GTCCGTGCTTAGCCAGAACCTTTCACTTCACCTTCAGGTAGCAAAATGTTTGAACGAGATACAAACATGTATAAGAAGAAGAAAATGAAGATAAGAATAATTTGAAATGAGGAAAAATGTTATTAGTATTCAAGGATGGTGAGAAATAAGGATAGATACATGACAGAACCATACAGTCCAAGGTAGATACGCAAAGGATATGGTTCTGTCATCTATGTAAGGATTATAATCAATCTTAAAATGAGGATTCTACTACTAAAGTAGTGAGGGGAACAGGAAATAGGAAACCGAAGCTCCTTTTGTGGCAACTAACATGGATTTTGGGTTTCCCTGGTAATGCAGCTGGTAAAGAATCCTCCTGCAATGCAGGAGACCCTGGTTCTATCCCTGGGTTGGGAAGTTCCCCAGGAGAAGGGATAGGCTACCCACTCCAGTATTCTTGGGCTTCCCTGGTGGCTCAGACAGTAAAGAATCTGCCTGCAATGCGGGAGACCTGGGTTCAATCCCTGGGTTAGGAAGATACCCTGGAGAAGGGAAAGGCTAACTACTGCAGTATTCTTGCCTGGAGAATTTCATGGACAGAGGAGCCTGGCGGGCTACAGTCCATGGGGTCGCAAAGAGTCAGACATGACTGAGTGACTTTCACTATTAACAACATGGACTTATGGGTCTTTCAAGGGCTGTCATGCCTAAGTGGGTCCTCTCACCTGTCTCTTCCAG
Seq C2 exon
GACACAGTGGTAGCTCTCCACGCCTTGTCCAGATACGGAGCAGCCACTTTCACCAGCGCTAGGAAGGCTGCACAGGTGACCATCCAGTCTTCAGGGACATTTTCCACAAAATTCCAAGTGGAAAACAGCAACCGCCTGTTACTACAGCAGGTTTCATTGCCAGAGGTGCCTGGAGAGTACAGCATGTCAGTCACAGGAGAAGGATGTGTTTACCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018137:ENSBTAT00000006167:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.147 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF076789=A2M_comp=FE(28.8=100)
A:
NA
C2:
PF076789=A2M_comp=PD(5.1=17.8)
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:
CATTTACCAACCCAGGGCTCC
R:
TGTACTCTCCAGGCACCTCTG
Band lengths:
353-1073
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]