BtaINT0010541 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018137 | A2M
Description
Bos taurus alpha-2-macroglobulin (A2M), mRNA. [Source:RefSeq mRNA;Acc:NM_001109795]
Coordinates
chr5:101308594-101309717:+
Coord C1 exon
chr5:101308594-101308714
Coord A exon
chr5:101308715-101309602
Coord C2 exon
chr5:101309603-101309717
Length
888 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGT
5' ss Score
10.2
3' ss Seq
TTTATTTCATCCCCTCCTAGCTG
3' ss Score
7.63
Exon sequences
Seq C1 exon
ATACACTTATGGGAAGCCTGTCCCAGGACGTGTGACTATGAACATGTGCAGAAAGTACAGGAACCCTTCTAATTGTTATGGTGAAGAATCCAATGCTGTCTGTGAGAAGTTCAGTGGAGAG
Seq A exon
GTACGTGGGAAGCCACTCCTAAGGACTAACAGCCTAAGCACCATTGACAAGTAGTGAGTTATATCATGGTGACAATTCAAGCAAGAACAGACCAATCTATAAAAGAATTCTATGCTAGCTATAATAGTTTTTATTGATAAAAATCAGTGACTTAGCCTAATAGGAATTATTTCTTGTCAATTGTAGGTATGCTTTGTGCACCAGGGACCCAGAACCTGGTATCTAAAACCCCTTTGAGTATCTGCAGGAAGTAAAGAGACAGAATATACCCATCTTAACCACCTTGGCTGAGAAGGGCTTCAGTTCTTCCCTCTTTCTTTGAGCAAGAGCTTTTCACATGGCCCCACCTAGATGTCAGGGAGGGAGGAAACACAGTCCCCACATGGGCAGCTACCTCCCAGCCACAGCTGTAAACTAAGGGAAGCCAGATTTCAGTGAAGAGTTAGCTGCCTCCTGCAGTAAGATTGTTGTTATTGTTTGGTTTCTCAGTTGAGTCTGACTCTCGCAACCCCATGGACTGTAGCCCACCAGGCTCCTCTGTCCATGGGATTTCCCTGGCAAGGGTCCTGAACTGAGTTGCCATTTCCTTCTCCAGGGGATCTTCCTGACCCAGGGATCAAACTCCAATTTTAACGGTTTAAATTTCTATACCTCATTCACTCTAGAGATTATCAGATACTAAGGAATACACCTATCAGTTATAAGGCAGAGACTGTTGTGAGATGTAATAATAATTAATTCCTAGAGAATATTTATTGTGTTTTTATTATGCAAGATTCCTAAGTCTTGTTGCCTCAAAAAAAAAAAAAAAAAAAAAATCCCTCCAGACTGCCTGACCACTCATTTGTCTAGTCTTACGTTTATGTGTTTTATTTCATCCCCTCCTAG
Seq C2 exon
CTGAACAATGAGGGCTGCTTCTCTCAGCAAGTAAACACCAAGATCTTCCAGTTGAAGAGACAAGAGTTTGAAATGAAAATCGAAGTGGAAGCCAAGATCCAAGAAGAAGGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018137:ENSBTAT00000006167:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.024 A=NA C2=0.051
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
ACACTTATGGGAAGCCTGTCC
R:
TCCTTCTTCTTGGATCTTGGCT
Band lengths:
230-1118
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]