BtaINT0013361 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011215 | ACTN4
Description
Bos taurus actinin, alpha 4 (ACTN4), mRNA. [Source:RefSeq mRNA;Acc:NM_001098052]
Coordinates
chr18:48738734-48739812:+
Coord C1 exon
chr18:48738734-48738880
Coord A exon
chr18:48738881-48739731
Coord C2 exon
chr18:48739732-48739812
Length
851 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CCTCCGGATGCCGCCGGCAGGAC
3' ss Score
3.95
Exon sequences
Seq C1 exon
CACATCCGGGTGGGCTGGGAGCAGCTGCTCACCACCATCGCCCGCACCATCAACGAGGTCGAGAACCAGATCCTCACCCGCGACGCCAAGGGCATCAGCCAGGAGCAGATGCAGGAGTTCCGGGCGTCCTTCAACCACTTCGACAAG
Seq A exon
GTGAGCGGCTCCCTCAGCCCCCGTCTTCCCTCCCTCCCCGCTGTCACCTCCCACCCCGCCCCCTCCGTCTTCACATCTGTCTGTCTGTTCACATCACGGTCCCTGAGTATCAGAGGCCACTCACGGGTTGACAGGGACCCAGCTTCCCTCAGGAGAAGAAAGGGGAACCCCTGGCTCTGTCCCTGGGGCTGTGTCTCCTCACCCACCTGCCAGGGCAACCCTGAACGGACAAGTGCCAGCACCCTGGGGATCCAAGACAGACAGACATCCAGACAGGTGCCAGCACCCCCGAGGATCCAAGACAGACAGACACACAGACAAGTGCCAGCACCCCCAGGGATCCAAGACACACACACTCACTGTTCTTAAAAGTCAGACGTGGTCTGGTAGCCCCGTTAGAGGGGCCCCGAACGCCAGTTCGCCCCAGGCCCTCCCTGCTGGACCTGAGGTGTCGTCCGCCTGCCCTCCGTGGGAAGGATGTACTCCAGGGGTTAGCAGGGCCCTGCATTCCACACAGGAGGGGCAGTCCCCTCTCTCCCACCCCAGATCCTGGAGGCCAGGACAGCTCCCCCGTTCCCTCCCAGGAGTCCTGGGTCTTGAGTCCTGCATCTCTCAGCCCCCGCCCCTGCCCTGGCCCAGAGGAGGCGGGGTGAGGCCTCTGACCACCCTCCAGGCCCCCACCCCGGCCATCACTGTGTCCTCGTCACCTCTAACTCTGTGTTTCCCTTCCCCCCGTGTGTCCCCCTCCCCTGCCCTCTGCATGTGACCCCGGCCCCCGGCCCCGCCTCTGCCGGCCTGGTCTCCACACCGCCCACCCCTCGTGCACACCTGCCTCCGGATGCCGCCGGCAG
Seq C2 exon
GACCACGGCGGGGCGCTGGGGCCGGAGGAGTTCAAGGCCTGCCTCATCAGCCTGGGCTACGACGTGGAGAACGACCGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011215:ENSBTAT00000014894:18
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=PD(20.2=42.9),PF134991=EF-hand_7=PU(31.3=53.1)
A:
NA
C2:
PF134991=EF-hand_7=FE(31.3=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:
CACATCCGGGTGGGCTGG
R:
CTGCCGGTCGTTCTCCAC
Band lengths:
228-1079
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development