BtaINT0013330 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009696 | ACTN2
Description
Bos taurus actinin, alpha 2 (ACTN2), mRNA. [Source:RefSeq mRNA;Acc:NM_001034635]
Coordinates
chr28:9423555-9425707:+
Coord C1 exon
chr28:9423555-9423647
Coord A exon
chr28:9423648-9425476
Coord C2 exon
chr28:9425477-9425707
Length
1829 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAG
5' ss Score
8.27
3' ss Seq
TGTGTGTGTTTTGGGAGCAGCTT
3' ss Score
4.11
Exon sequences
Seq C1 exon
GCTGAGACAGCGGCTAACAGGATATGTAAGGTTCTTGCTGTGAATCAAGAGAATGAGAGGCTGATGGAAGAATATGAGAGGCTAGCGAGTGAG
Seq A exon
GTAAAGGAAACGGGTCCCCGCGGTCTTGTCCATTCCCTCCCTGAGGGTGAGAAACAGAGGGTGAACACGGATTGTCAAGTGTTTTGTTTTGTTTTTTTTTTCTTTGCATTTTTCATCTCAGGTAGACTAAAGTAGGAAACTCCACTAGCTCTCAGGAATTGTTCATCTTGTAGCAGCTTAATTATTGGCACTAAGATCATGCTGCAGGTTGTTCCAAGCACTGCAGGGCATGGAGGTAGTTTGCATGTTAGAAGCTCTGCACCTCCGGGGTTGGACTCCCCTAGATGACACTGCGTTCCTTGTTTTTTTCCTGCTTCATTGGCTTCTGACATCACATTGGATGCGCTCCGTATTCAGGATCCCGGCTCCACGCAGTGACTTAGGATCTAAGGAACATGTACAATCCATAGTGAGATGACAGAGGCTCAGCCCTGTGTATGTATTTAAATATCAAATATCTAGAGGGAACCTGGTGGAGGCAGAGCTGGTAGAGCCCTCCGTCCAAGACATTTGAGCATGAGTTTCCAGGATGCCTTTTTACAGCTCTTCAGTCAGATTCTTGGTTAGAGTAGCACTTTCCACGCTGCTCTTCTTTTTGTTCTTATTATAGTGTAAATATTAACTAAGCAGGACCGGAGAAGCCAGGTGGCTTAGTGGTAAAGAATCCACATGCCAGTGCAGGAGATGCAGGAGACTCAAGTTCGATGCCTGGGTCGGGAAGATTCCCTGCAGAAGGACATGGCAACCTACTCTAGTATTCTTGCCTGGAGAATCCCATGGACAGAGGAGCCTAGCAGGCTATAGTCCATGGGGTTGCAAAGAGTTGGCCACAACCGAGTATGCATGCAACCAAAGCAAAGCAGGACCAGGCTGAGGTCCACAGCCACCTCCTCTCTGGATTGAACTCAGCCACAGTGACAGTAGCGGAGAACAAGTCATGTTTGCTGTGAGTTACTCGGGCCCATACTTGGCCTGTCCTGGGTAAAGCATCGGAACACTTGGAATCAATTTTCCCAAGTAGTTGTATGTATGAGTCCAAGCTGATGATGCTGTTTTGACTTTGTACTGTTGTGGGAAAATTCCATTTGCAGCATCATTTAATGCCAGTGATCCAGCTTCAGGGTTGAAGTAGGACCAGGACCAAAGGACAGATGCTCCTCAGTGATGATAGCCTTCATTGTCTTACTTGGTCCTTTATTCATCCTCTTCAGATAGACTGTGCAGGGCGTTTGTAAGGCCTTGGTGGTAATTCAAGAGAACGGGGCATCCTTCATTCTTGGGATTCATTGCCATTTCCACCTTCATCCTGTGGATTTCCTTGAAAGTTAGCTATTAAAATACACTTTGGCATTGAGTCAGTTCCAGATTTACAGTGCTTTTGTGTAGTAAATAGACCCATTAGATTTGAGCCGATTGAAACTAGAAATACATTTTAAGTTAAACCCAGTCCTTTCCTGATTTTATTCCACCACGTGAAGTTTTTGGTTGTTTTTTTTTTTTTTTTTTTCATTTGAAAGCTCCATCCAGCATTTGTCTGCTCATGTCTGGTCCCCAAGTTTCCTGTAAATGTCTCATTTTTGTAAAACATGCCTTGTGCTGACTCTGAGTTTTCAACCTGTACACTTGGGCAAGGGTGAGTGGCCCTGGGTGGGGACTGAAGTCTCCATTTGTGTCCTCCTTACAGATGGGGCTGTTACAGACTTCTATAATCTCAGGAGCTTTTGGTCAACCCATTCCCAATTGTTAGATGCCTCTGTTTTATAACTGGGGGTCAGTTTGCTGTTTTTTTCAGCAGTTTTTATGTGTGTGTGTGTGTGTTTTGGGAGCAG
Seq C2 exon
CTTTTGGAATGGATTCGGCGCACGATCCCCTGGCTCGAGAACCGGACTCCTGAGAAGACCATGCAGGCCATGCAGAAGAAGCTGGAGGACTTCCGGGATTATCGCCGGAAGCACAAGCCTCCCAAGGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACCCTGCAGACCAAGCTGAGGATCAGCAACCGGCCGGCCTTCATGCCCTCCGAGGGCAAGATGGTGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009696:ENSBTAT00000012786:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PU(9.9=35.5)
A:
NA
C2:
PF0043516=Spectrin=FE(68.5=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:
TGAGACAGCGGCTAACAGGAT
R:
GACACCATCTTGCCCTCGGAG
Band lengths:
321-2150
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]