BtaINT0010527 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018137 | A2M
Description
Bos taurus alpha-2-macroglobulin (A2M), mRNA. [Source:RefSeq mRNA;Acc:NM_001109795]
Coordinates
chr5:101333797-101334477:+
Coord C1 exon
chr5:101333797-101333871
Coord A exon
chr5:101333872-101334296
Coord C2 exon
chr5:101334297-101334477
Length
425 bp
Sequences
Splice sites
5' ss Seq
ACAGTACGT
5' ss Score
7.54
3' ss Seq
TTCCTGTTCTCTCTCGCCAGCAC
3' ss Score
9.06
Exon sequences
Seq C1 exon
GGTGGGGTGGACGATGAAGTGACCCTCTCTGCCTACATCACCATCGCCCTTCTAGAGATGCCTCTCCCTGTTACA
Seq A exon
GTACGTGTCCTGGCTAAAGCATTGCTCTGGATGCCATGAAACTGCTGACATGTTGTCTGAAATGTCACCTTACTCAGCTTTCCCACTACGCAATGCCAGTGCTTCCCAGATCATTAGAGAATTTGATCAAACCACTAAGATACATTTACACTTTCCCAGTGATGGCCCTTGTCTATTTCTTCCCTAGCAACCTCACCACCAGCATCACACACACATAGAATCTAAAATTCTAAAGATATGGATTATATTCTTGCACTATGAATGTAGACTAACAGATTAAAAAATACTATTCTCTCCCTCCCTAAGAATGAGGCTAGAGGGATAAATGCTGAACAACCTGACCTCTGTGCTGTGGTCCGTTTTTACCTGGGGGCCCCAACCTCCCTATTCACACAGCACACCCCCTTCCTGTTCTCTCTCGCCAG
Seq C2 exon
CACCCTGTCGTCCGCAATGCCCTGTTCTGCCTGGACTCAGCCTGGAAGTCAGCCAAGGAAGGATCCCAAGGCAGCCACGTCTACACCAAGGCACTGTTGGCCTATGCCTTTGCCCTGGCGGGTAACCAGGAAAGGAGGACAGAGGTACTGACGTCACTGTATGAGGAAGCCGTGAAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018137:ENSBTAT00000006167:28
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=0.016
Domain overlap (PFAM):
C1:
PF076789=A2M_comp=FE(9.3=100)
A:
NA
C2:
PF076789=A2M_comp=FE(23.3=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:
TGGGGTGGACGATGAAGTGAC
R:
CTTCCTTCACGGCTTCCTCAT
Band lengths:
254-679
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]