BtaINT0013303 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018255 | ACTN1
Description
Bos taurus actinin, alpha 1 (ACTN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001035351]
Coordinates
chr10:81027613-81028787:-
Coord C1 exon
chr10:81028641-81028787
Coord A exon
chr10:81027694-81028640
Coord C2 exon
chr10:81027613-81027693
Length
947 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGC
5' ss Score
8.19
3' ss Seq
CTGGCGCACGGCGGCCCCAGGAT
3' ss Score
2.9
Exon sequences
Seq C1 exon
CACATCCGTGTGGGCTGGGAGCAGCTCCTAACCACCATCGCCAGGACCATCAATGAGGTGGAGAACCAGATCCTGACCAGGGATGCCAAGGGCATCAGCCAGGAGCAGATGAATGAGTTCCGGGCCTCCTTCAACCACTTTGACCGG
Seq A exon
GTGAGCTCCACCCCTGCACTCGCTGACGGCAGCCCCAGCCCCAGGGCCCTGGAGGGCACTGCCCAGGGCATGGGCCCACTTCCTGGGCGAGTGAGGAGGAGAGGGTGGGGAGGGAGGAGCTGCAGTCAGCCTGCTCTGACTCTCCACCGCCCCAGGCTGGCCTTAGAAGCTGTCCAGGTGTCCCACGAGCATCGCTGCTTTCCTGGAGAGAGTGCTCGTGTTGTGGGTGAAGTGAAACCCTCAGACCCCTGACTCTTGCTCTCCTACCATGAGGAGTCACGCCTTGGGGGCAAGGCTGCCATAGCCTCAAGGGAGGGTCTGCTGTCCCTGGCTATGGCGACCATCCCCTGCCTGTGCCTGGGGACAGAGCAGAGCCTCCCTCCTCCCCGAGCCCCGGGGGGCCTTTCGGACCCCTGGTAGAGGTGCCAGAGCTATCAGTCCTCCTGGATTCTCATCCAGTTTTGTGTGGGCTGCCCCTCCCAGTGCCTTGGGGCTTTGTGGTGGCCACAGGGGGTGGGAGCATGGGCTTGGGTGCTGCCCACCACCCCTGCCTGCTTCACTGCCCTCCAGGCACCTGGGTGGGTGGCGTCCTCCTGGAAAACCCTGCTCAGGGCATCGGGGCCAGAGGTGGGCTGGGCACTCTTCTGGGGGAGCTTCTTTCCCCATGGCTCACCATGCTTCCCTCCAGCCTGCTCCCCGGGGCAGGACAGCTGCGTGTACCGGGGAGAGGGCCCCCTCTGGGCCACGGCCGTGTGTCTAACCTTGTGCACTTTTATTTCCCTCCTCCCCCCGCCCCTCCGCCCTCCACCTTCCCCATCCGCATGCCTTCGTCCCTGTCTCTCCCCACACACGCTACCCTCCACTGGGGCATGGCCCACCCCTTCCCCCTCACGGCCTCCACCTCCCTGGCACCGCATGGCTCGCTGGCTGGCGCACGGCGGCCCCAG
Seq C2 exon
GATCACTCCGGCACGCTGGGTCCCGAGGAGTTCAAAGCCTGCCTCATCAGCTTGGGTTATGATATTGGCAACGACCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018255:ENSBTAT00000024301:18
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(32.1=55.1)
A:
NA
C2:
PF134991=EF-hand_7=FE(31.0=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:
ATCCGTGTGGGCTGGGAG
R:
CTGGGGGTCGTTGCCAATATC
Band lengths:
225-1172
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development