BtaINT0013353 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011215 | ACTN4
Description
Bos taurus actinin, alpha 4 (ACTN4), mRNA. [Source:RefSeq mRNA;Acc:NM_001098052]
Coordinates
chr18:48728575-48729524:+
Coord C1 exon
chr18:48728575-48728805
Coord A exon
chr18:48728806-48729376
Coord C2 exon
chr18:48729377-48729524
Length
571 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
GCCCTCTCCTGCCCCCACAGGAC
3' ss Score
11.63
Exon sequences
Seq C1 exon
CTCCTGGAGTGGATCCGGCGCACCATCCCCTGGCTGGAGGACCGCGTGCCGCAGAAAACCATCCAGGAGATGCAGCAGAAGCTGGAGGACTTCCGCGACTACCGGCGGGTCCACAAGCCGCCGAAGGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGCTGCGCCTCAGCAACCGGCCTGCCTTCATGCCCTCCGAGGGCAAGATGGTGTCG
Seq A exon
GTGAGTGCCGGGGCCCAGGAGGCCTACGGAGCCACAGAGGCCCCGTGAGGGGTGGAGGGGCAGCTCCAGGCCAACCCCAGGCGTATTGTCTGGCCTGCAGTCTTTCTGAACTAGAACGCACAGATCCGGGTACAAGGCGCCGTGGGGCATACACTTGGCATTTGACTGTTTCGTTTCCCCGCATCACTCCCTGGAGGTTTACTCTCATCCCAAGACCACACCATAGTTTGGAGTCATTTGAATTTGGACCTTCATTTAGCTGGGACTCCCAGACCTCCAAGTGCTTGAGATCCCTTTCCAGGAGAGGGTGATAGTCACTGCACAGGCACCTTTTGACTCCCATAGCACCATGGGGGCATTCATTCATTCCTTGTCACTCATTCGTTTAATCGGAAAGTGTAGACTGCACCTGCCTCGTGTGGGGCCCTGTGCAGGCGTGCAGGTACAGCAGAGCAGGGTGACGTGTGACCCCGGCCCGTTTCTCTGCCTTCTGTGAACATCCCTCTGGGAGGCACTGCCCCGCTGGGTACCCCAGCCCCCCATGTAGCCCCGCCCTCTCCTGCCCCCACAG
Seq C2 exon
GACATCAACAACGGCTGGCAGCACCTGGAGCAGGCCGAGAAGGGCTACGAGGAGTGGCTGCTGAACGAGATCCGCCGGCTGGAGCGGCTCGACCACCTGGCAGAGAAGTTCCGGCAGAAGGCCTCCATCCACGAGGCCTGGACCGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011215:ENSBTAT00000014894:10
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=FE(68.5=100)
A:
NA
C2:
PF0043516=Spectrin=PD(18.9=42.0),PF0043516=Spectrin=PU(17.0=36.0)
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:
CATCCCCTGGCTGGAGGAC
R:
CTCGTGGATGGAGGCCTTCT
Band lengths:
343-914
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development