BtaINT0013297 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018255 | ACTN1
Description
Bos taurus actinin, alpha 1 (ACTN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001035351]
Coordinates
chr10:81032687-81033391:-
Coord C1 exon
chr10:81033241-81033391
Coord A exon
chr10:81032796-81033240
Coord C2 exon
chr10:81032687-81032795
Length
445 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGC
5' ss Score
7.47
3' ss Seq
TCCTCTCTCCTCCCCTGCAGTGA
3' ss Score
10.88
Exon sequences
Seq C1 exon
GCAAAGAGGCCATGCTGCGGCAGAAGGATTACGAGACGGCTACCCTCTCGGAGATCAAGGCCCTGCTCAAGAAGCACGAGGCCTTTGAGAGTGACCTGGCTGCCCACCAGGACCGCGTGGAGCAGATTGCCGCCATTGCCCAGGAGCTCAA
Seq A exon
GTAAGCCCAGCGGGCACTACAGTGCTGTGGGAGGTGGGCTGTGGCCTGAAAAGTGAGCCGGGTCCTGGAGCAGGAGGTCATTGATACAGAAGACTAAGAACGTCCTCGCAGGTGGGGAATAGCCTGCGACCATTCTGTCACAGGCCTTCGGTCCTTACCTACAGCCAGTGTGGGACCAGAGGGTGACCGAGTATGGCTCTGAGATCTTGCCTGGTCTTAGTGGCTTCCTGTCACTGGGCATTGCAGTCAAGGCTGGTGTGACTTCCAGGCGAGGCTGGGGCGGGGGCCCTTGCGGAGGAGAACTGTTCTCCTCCCAGCAGTCTCCTGAAAGCCCAGAGGTTGAGGGTGGGAGTATGGGTCCTGGAAGGTCTTGAAGAAGTGCGCAGGAGAGCAGGCCGCAGAGGTAACCTGGGTCGCCTGTCTCTTCCTCTCTCCTCCCCTGCAG
Seq C2 exon
TGAGCTGGACTATTACGACTCACCCAGTGTCAACGCCCGGTGCCAAAAGATCTGTGACCAGTGGGACAATCTAGGGGCCCTAACCCAGAAGCGAAGGGAAGCTCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018255:ENSBTAT00000024301:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(47.2=100)
A:
NA
C2:
PF0043516=Spectrin=FE(34.0=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:
CAAAGAGGCCATGCTGCGG
R:
CAGAGCTTCCCTTCGCTTCTG
Band lengths:
256-701
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development