BtaINT0013300 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018255 | ACTN1
Description
Bos taurus actinin, alpha 1 (ACTN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001035351]
Coordinates
chr10:81030713-81031299:-
Coord C1 exon
chr10:81031117-81031299
Coord A exon
chr10:81030848-81031116
Coord C2 exon
chr10:81030713-81030847
Length
269 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
CCTGACTGTTCCTGCCCCAGGTG
3' ss Score
9.6
Exon sequences
Seq C1 exon
GGACTGACCACAGCCCATGAGCAGTTCAAGGCCACCCTCCCCGATGCCGACAAGGAGCGCCTGGCTATCCTGGGCATCCACAACGAGGTGTCCAAGATTGTCCAGACCTACCACGTCAACATGGCAGGCACCAACCCCTACACAACCATCACGCCTCAGGAGATCAATGGCAAATGGGACCAT
Seq A exon
GTGAGTCCAAGGGCTGGGTGGGGCGCTGGCAGAGCCATTGTAAGTTTCAGAAGGGCAGGGATTTTTGTCTGTCTGTATTCTGATTTTCATTGATTTCAGTGTCGTTCAGTAAGTACTCATTGTCTAGCAAATGAATGCATTTCTAGAACAGGTCAATGTGTTCACTCCTATTACTGCCTGGCCTCTTCCCTTCATGGCTCCTCCACTTCCTCTGACATGGAGGCAGATGGCCGGCCCGTCCCAATGTCCCCTGACTGTTCCTGCCCCAG
Seq C2 exon
GTGCGGCAGCTGGTGCCACGGAGGGACCAGGCCCTGACGGAGGAGCACGCCCGCCAGCAGCACAACGAAAGGCTACGCAAGCAGTTTGGGGCTCAGGCCAATGTCATCGGGCCCTGGATCCAGACCAAGATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018255:ENSBTAT00000024301:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.213 A=NA C2=0.467
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(53.6=100)
A:
NA
C2:
PF0043516=Spectrin=PD(11.6=28.9),PF0043516=Spectrin=PU(20.2=46.7)
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:
ACAGCCCATGAGCAGTTCAAG
R:
ATCTTGGTCTGGATCCAGGGC
Band lengths:
305-574
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development