BtaINT0010514 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018137 | A2M
Description
Bos taurus alpha-2-macroglobulin (A2M), mRNA. [Source:RefSeq mRNA;Acc:NM_001109795]
Coordinates
chr5:101319886-101320626:+
Coord C1 exon
chr5:101319886-101320053
Coord A exon
chr5:101320054-101320520
Coord C2 exon
chr5:101320521-101320626
Length
467 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
AGTTATGATTTCCTTTACAGGAT
3' ss Score
9.13
Exon sequences
Seq C1 exon
GTTTATAACCTGCTACCAGTCAAGGACCTCAGCAGTTTCCCCTCAAGTGTAAATCAACAGGAGGAAGACAATGAAGACTGCATCAGTCATGACAATGTCTATATCAATGGAATCATGTATTTCCCAGTATCAAATACAAATGAAAAAGATATGTATAGCTTCCTGCAG
Seq A exon
GTAAGTCCCTTATACTGCTGATGGTCACTTCTTAAGGTTCACAAAATATTATCCATAGGAAGAATATTTATTTTAATGCTTCCATATCATAGTTGAGGGCAATGGAACATAGAGAGGTCAAGTAACTTCTCCAACATCTACTAATAGTAGCAGATCTGCAAGAGCAACATAACTAGGACTGGAACTTCTGGGACTATTAAGCAAATTTTGTTTTGTCTTTTTACCGAAATTCATTGCCTTGTGATATTTATAAATATCATATATGTAAAATAATTACCTTTGAAAGAGGTTTAAAGCCAGAATAAAATTATCTGTTTATCAATTTCCTTTCTACTATGTGAACATTAAAAATTTTTAATTAAAATAAAAATTAGTATTAACCTAGTTGGATTATTTGTTTAATTCTATGAAAAGAAGAATGGGTATAAAATATGGATGTACTGATTCAGTTATGATTTCCTTTACAG
Seq C2 exon
GATATGGGCTTGAAGGCATTTACCAACTCAAAGATTCATAAACCCAAGATATGTCCACAGCCTGAAGAACATAGAATACAGCATCACACACTATTAGCTTCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018137:ENSBTAT00000006167:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.179 A=NA C2=0.139
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATAACCTGCTACCAGTCAAGGAC
R:
TGGAGAAGCTAATAGTGTGTGATGC
Band lengths:
270-737
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]