BtaINT0010516 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018137 | A2M
Description
Bos taurus alpha-2-macroglobulin (A2M), mRNA. [Source:RefSeq mRNA;Acc:NM_001109795]
Coordinates
chr5:101321298-101324303:+
Coord C1 exon
chr5:101321298-101321418
Coord A exon
chr5:101321419-101324074
Coord C2 exon
chr5:101324075-101324303
Length
2656 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
CACATGGCCATCGTCCCCAGCTC
3' ss Score
5.25
Exon sequences
Seq C1 exon
TCAGAGCTGAAATGGGAAGAAATCGTGATTTTGTGCATTTTGATGATACTTCAGAGCCTCCCACAGAGACTGTACGAAAGTACTTCCCTGAGACATGGATCTGGGACTTGGTGGTTGTAAG
Seq A exon
GTAAGCAACTTCTTTTAAATTACTTATTTTTTATTTACTTTATTTTCACTTTTCATTCATTTTATTATTCATTATTGACTCTACTGGGTCTTCCTTGCTATGCACAGGCAATTTCTCTGTAGCCTGCAATGCTGTCTGATAGCATTTACCCATTGTAGAATGTCTTTCAAAATTGGAGTCAGTCCTCTCAAACTCTGCCATGGCTTTGGCAACTAAGTTTATGTAATATTCTAACTCTTTTGTTGTCATTTCAACAATTTACAGTATCTTCCACAGGAGTAGTCTCCATCTCAGGAAACTACTTTCTTTGCTCATCCATAAAAAGCAACTCCTTATCCATTCAAGTTTTAACATGAGATTGCAGCAATTTGGTCATATCTTCAGGCTGCACTTCTAATTCTGGTTCTCTTGCTATTTACACCACATCTGCAGTTATTTCCTCCACTGAAGTCTTAACCCCTCAAAGTCATCCATGAGAGTTGGAATCCACTTTTTTCACTCTCTTGTTAGTGTTAATAGTATGACCTCTTCCTATGAATCATGAATGTTCTCAATAGCACCTAGAATGGTGAAGCCTTTCCAAGAGGTTTTCAATTGACTTTGCCCAGATCCATAGAGGACTCAACCATATATGGCAGCTAAAGCCTTACAACGTATATTCCTTAAAGAATGAGACTTGGAAGTCAAAACTACTTCTTGATCCATGGACTTCAATGATTATTGTGTTAGCAGGCATGATGACAACATTAATCTCATTGAGCATCTCCATCAGAGCTCTTGAGAGACCAGGTACATTGTCAATGAGCAGTAGTATTTTGAAAGGGATCTTTTCTTTCTAAGCAGTGGGTCTCAACAGTGGGCTTAAAATATTCAGTAAACCATGTTGTAAACAGATGTTCTATCATACAGGCTCTGTTGTTCCATTTATAGAGCACAGGCAGAGTGGATTTAGCATAATTCTGAAGGGCCCCAAGATTTCCAGAATGATAAATGAGCATTGGTTTCAACTTCAAGTCACCACCTGCATTAGCCCCTAACTAGGGAGTCTGCCCATCCTTTGAAGATTTTAAGTCAGACATTGACTTTTCCTCTCCAACTATGAAAGTCCTAGTTGGCATGTTCTTATAATATAGGGCTGTCTCATCTACATTTAAAAATCTGTCATTTAGTGTGGTCACCTTCAGTAATTATCTTCTGGATAACTTGCAGCAGCTTCTATATCAGCACTTGCTACATCACCTTGAGCTTTTATGTTATAGAGTTAACTTCTTTCCTTAAGCCTCATAAACCATTCTCTGCCAGCTTCAAATTCTTCTGCAGCTCCCTTACCTCTCTCACCCCACAAAGAATTGAAGAGAGTTAAACCAAAGAGAGTTGGGGCCTTGCTCTGGATCAGGCTTTGGTTTCAGGAAATGTTGTGGCTGGTTTGGTCTTCTCTCTAAATCACTCAAATTTTCTCTGTCAAGCAGTAAGGCTGATGTTCTGTCTTATCATCTAAGTGTTTACCCAAGTAGTACTTTTAATTTCCTTTAAGAACTTTCCCGAGCATTCATAACTTGGCTAACTGGTGCAAGAGGCCTAGCTTCCAACTTGAATTCCCCACAAAGCTTAATCATTTCTAGCTTTTTTAAAAATTGCATTTATTTATTTTCGGCTGTACTGGGTCTTTATTGCTGCATGCAGGTTTTCTCTAGTTGCAGCGAGTGGAGGCTACTCTTTGTTGTGATGTGTGGGCTTCTTATTGCAATGGCTACTCTTGTTGTGGAACATGGGCTCTAGAACATAGGCTTAAGTAGTTGCGCACTGGCTTAGTTGCCCTGGGGTATGTGGGATCTTCCCAGACCAGGATCAAACTCATGGGCCCCCTGCATTGGCAGGTGAATTCTTAGCCACTGGAAAACCAAGGAAACCCTATTTCTAGCTTTTGGTTTATTAAAGTGAGAGGTGTGCAATTCTTCCTTTCATTGAACACTTACAGGCCATCCTAGGATTATTAATTGGCCTAATTTCAGTATTGTTATGTCTCAGGGAATACAGAAGCCTGAAAAGAGGAAGAGAGTTGGGGGAATGGCTGGTCAGTGGAGCAGTCAGACACACACAGCATTTATCTATTAAGTTTGCTGTCTTATATGGGTACAGTTTATGGTACCCCAAAACAAGTAAAATAGTAACACCAAAAATTAATGATCACAGATCCATAACAAATATAATAATAATGTAAAAGTTTGAAATATTGAGAGAATTACTTCAGAGACCTGAAGTGAGCAAATGCTGGTAGAAAAATGACACCAATAGACTTGTTTGACACAGGATAGCCACAATTTGTTTAAAAACACAGAACTGTAAAGCACAATAAAGTAAAGCACAATAAAACGAGGTATGCCTGTACTGGGGCTTCCCTGGTGGCTCAGTGTAAAGAATCTGCCTGCCAGTATAGGAGACACAGGTTCAATCCCTGAGTCAGGAAGATCCCCTGAGGAAGGGAATGGCAACCCACGCCAGTGCTTTTGCCTGGAGAATCCCATGGCAGAGGAGCCTGGTGGGCTATAGTCCATAGAGTCTCAAAGAGTTGAACACAACTTAGCAACTAAACACAACAACAAGGCCTGTATTTTAACTGCCTGCTTTTTGTTTTTCACATGGCCATCGTCCCCAG
Seq C2 exon
CTCTTCAGGTGTGCATGAAGTAGAAGTAACAGTCCCTGATACCATCACTGAATGGAAGGCAGGGGCCCTCTGCCTGTCCAGAGACACTGGACTTGGTCTCTCTCCGACCGCCTCTCTCCGAGTCTTCCAGCCCTTCTTTGTGGAGCTTACAATGCCCTACTCTGTGATCCGTGGAGAGGCCTTCACACTCAAGGCCACAGTGTTAAACTACCTTCCCAAATGCATCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018137:ENSBTAT00000006167:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.146 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0020717=A2M=PU(9.9=22.0)
A:
NA
C2:
PF0020717=A2M=FE(83.5=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]