BtaINT0010522 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018137 | A2M
Description
Bos taurus alpha-2-macroglobulin (A2M), mRNA. [Source:RefSeq mRNA;Acc:NM_001109795]
Coordinates
chr5:101329012-101330733:+
Coord C1 exon
chr5:101329012-101329119
Coord A exon
chr5:101329120-101330649
Coord C2 exon
chr5:101330650-101330733
Length
1530 bp
Sequences
Splice sites
5' ss Seq
CTGGTAATT
5' ss Score
5.99
3' ss Seq
TGGCTGATTTGTTTCTCTAGGTG
3' ss Score
10.63
Exon sequences
Seq C1 exon
TTGACTTTGTCTTTCTCGGTGCCGAAGATGGAGGCCAAGTACTCCGCCATTTCCCACCCGCCGCCGCCACCGACACTGCTGCCGACGCCCACGACCCCGCCCGACCTG
Seq A exon
GTAATTTGTCTTTTTGCTTTGCTTATGTCATGTTTTCTTACAAAAAGTTTTTTGAATGTAAGAGAATTCATATACAAGTAATATATAATTAATATAACTATATTTAGCACACAATTATATATTTAACTACAGGATTAAATTTAACTACATGACTATGTAATTAATATAACTGATAGTATATACATAATTGATATATCCTACTTAATGAGTTTGGAGGAAGTATACACTTGTGAAACTGTCACCACAATCTATACCATAAACTTATCCATCACTTTCAACAGTTTCCTCTCACTCTGTTATTATTATGTTTTTGTAATATAAGATATATCCTATTAGCAAATGTTTAGATTTCACTTTCATGCATTGGAGGAGGAAATGGCAACCCACTCCAGTATTCTTGCCTGGAGAACCTCAGGGATGGGGGAGCCTGGTGGGCTGCCATCTTTGGGGTCGCACAGAGTCCGACATGACTGAAGCGATTTAGCAGCAGCAGCAGCAGGTATACAATACAGTATTAACTCTAGGCACTATGCTTTACAATAGACCTCTTGAATTTACTCATCTTGTATGACTGATACTTTGTGCCCTTTGACAAAGTTTCATTATTAGTCTATAAAGATGGGATTCAGTATGATGATAAATACTACAATTTTTTCTTTTCTTCTTCATGTCATTCACCAATTAAAAGGCCAGCAAATGTATGCTTATCAGCAACTATTAATTTCTTTTCAGTGAGTCAAATACTGTTCATCTTCACCCCCTGCCCCATGTCTAGGGTTTCCATAAAAATACTGTCTTTATATCTGGTGAAATTTGATGGAAGTAAAGACTGAGCATTAAGGTAGAATTCAGGAACTTTTGAGTGACAGCTGAAACCACCACCAAGATATTCTGGCCATGGTTTGGTCTTAATGAAACTCACTGAGTTGTGTTCGACTCTTTGCACCCCTATGGACTACACAGTCCGTGGAATTCTCCAGGCTAGAATATTGGAGTGGGTAGCCTTTCCCTTTTCCAGGGGATCTTCCCAACCCAGGGATTGAACCCAGGTCTCCTGCATTGCAGGCAGATTCTTAACCAGCTGAGCCACAAGGGAAGCCCAAAAACACTGAAGTGGGTAGCCTATCCCTTCTCCAGCGGATCTTCCCGACCCAGGAATCCAACCAGGGTCTCATGCATTGCAGGAGGATTCTCTACCAATTGAGCTATCAGGAAAGCCCCAAAAAAACAGATTTTGGGCTTCCCTTGTGGGGAATTACACAGAATTACAATGTGTCAGGTTCTTGTCAATGTGTAGCCTTCTTTTGGCTACAATTTCACATACAAAGAGGCCGGGAAAGGAAAGATTCTAGAAATCTCAGAATCCCATTCATGTATGTTGAAGATATTAAAAAACTGGAATATTAAAAAAGGGACAACTTTTCAGAAGAAGTTTAGGTTCAAGGCATAGTTCTGGCTTCTGGGTCTTGGAGATCTTTAAGAAGATGCACAGTAGAAGTCATTTTCATCATGGCTGATTTGTTTCTCTAG
Seq C2 exon
GTGCCAAGGTGTCTGAATCATTATCTCTGAAGCTGCCACCAAATGTGGTGGAAGAATCTGCCCGAGCCTCCTTCTCAGTTTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018137:ENSBTAT00000006167:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.514 A=NA C2=0.172
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TGACTTTGTCTTTCTCGGTGCC
R:
TAAAACTGAGAAGGAGGCTCGG
Band lengths:
190-1720
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]