BtaINT0010518 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018137 | A2M
Description
Bos taurus alpha-2-macroglobulin (A2M), mRNA. [Source:RefSeq mRNA;Acc:NM_001109795]
Coordinates
chr5:101300710-101302235:+
Coord C1 exon
chr5:101300710-101300893
Coord A exon
chr5:101300894-101302075
Coord C2 exon
chr5:101302076-101302235
Length
1182 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
GGGTCTCTCTTCTATTTCAGCTC
3' ss Score
9.81
Exon sequences
Seq C1 exon
GCAATACATGGTGCTGGTCCCCTCCCTGCTCCATACGGAGACCCCTGAGAAGGGCTGCCTCCTTCTGAGCCACCTGAATGAGACGGTGACCGTCAGCGCCTCCTTGGAGTCCGTCAGAGAGAACAGGAGCCTCTTCACTGACGTGGTGGCAGAGAAGGACTTATTCCACTGTGTCTCCTTCACT
Seq A exon
GTGAGTATGACAGTTTGACTTAATACACTTGTTTCTATGGGTCAGAAGCACAGGGATCTAGAATTCAGTCAAGATAAGACTTTGCGAGGCTGGCATGGACTTCACGAAGGAATCTAAATGTAACGACTAAGTGTAGAAATTAAGAAGCCACATGTGAATTTCCAACCACGGTAGACAAATATTTATAGAGATATTAAAATGAGCTTAATGATTGAAGAAAATTCCTCTTAACAAAACAAAACAAAACAAAAAAAAACAGTAAAAACTAGACAAAGGGAAAGTGTGACTTCTCCTTAAAATGAAAATGGAAAAAAGACTAATAAAACATACTAGGCCAATGTTCAACATAAGCCCCAGTGGTGGGCTGACTGGAACACAGAACACATCATCCCATACTCTTTCTAAGCGTGAAACTGTGGAAATCACCATGAATGTACAGCCAGTATCTCTTCAGAGTTGTATAGAATCCTTACAGCATCCAGCCAATAAAATATTGCAGTTTCCTTTCTAATAGCGTAAGTGAAGAAAATCAGACAGAGGAAGACAAATATCATATAATATCGCTTACATGTGGAATCTTAAAAAAAAAATCATACAAATAAACGTATTTTCAAAACAGAAACAGACTCACAGACTTACCGGCAGAGGGATAGATTGGGAGTTTGAGACTGACATGTACACACTGCCATATTTAAAATAGATAACCAATAAGGATCTACTGTATAGCATAAGGAAGTCTGCTCAATATCCTGCAATAACCTAAATGGAAAAAGAACTTGAAAAAGAATAGATACATGTATATGAATAACTGAATCACTTTGCTGTACACCCAAAACTAACACAAAATTGTTGATCAACTATACTCCAATATAAATAAAAATTAAAAACAATAAATTGAGCAAAAATATTTTTTAAAAACTGTTCTGGCTGATCTACAAGGAGATGTGAATCTCATTTATGACCTCACTCACTGTTATGTTTTCCTCCACCTTTTGTTCTGTCTTCCCATTCACAAGTGACAGAGGTCATCCTGTCCATGAATTTCTGTCCATGACAGCTTTCTCCGATGAGAATGGGCCAGTGAAATTAAAAGGGGCAAGACCCCTAGGGAGAAGTAGGAGAGGGACTTGGAGAGGAAACTTGGGAAATGAGTGGGTTTTCAGGGTCTCTCTTCTATTTCAG
Seq C2 exon
CTCCCAAGATCTCCAACCAGTCAAGAGGTAATGTTCCTTACCATCCAAGTGAAAGGACCAACCCAAGAATTCAAGAAGCGGACCACAGTGTTGGTTAAAAACGAAGAGAGCCTGGTCTTTGTCCAGACAGACAAACCCATCTATAAACCAGAGCAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018137:ENSBTAT00000006167:2
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:
NO
A:
NA
C2:
PF0183514=A2M_N=PU(17.0=29.6)
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:
CAATACATGGTGCTGGTCCCC
R:
TGTCTGCTCTGGTTTATAGATGGG
Band lengths:
342-1524
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]