BtaINT0013295 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018255 | ACTN1
Description
Bos taurus actinin, alpha 1 (ACTN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001035351]
Coordinates
chr10:81036600-81038699:-
Coord C1 exon
chr10:81038469-81038699
Coord A exon
chr10:81036748-81038468
Coord C2 exon
chr10:81036600-81036747
Length
1721 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGC
5' ss Score
9.1
3' ss Seq
TGTGCTTCCCATCCCTGCAGGAC
3' ss Score
13.09
Exon sequences
Seq C1 exon
CTGCTGGAGTGGATCCGCCGCACCATCCCATGGCTGGAGAACCGGGCACCCGAGAACACCATGCACGCCATGCAGCAGAAGCTGGAGGACTTCCGGGACTACCGGCGCCTTCACAAGCCGCCCAAGGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGCTGCGCCTCAGCAACCGGCCCGCCTTCATGCCCTCCGAGGGCAGGATGGTCTCG
Seq A exon
GTGAGCACCCGGACTGCCCCAACCCGGAGCCGCTCCCAGGCGCCGGCAAAAGACGCACTGTGGGCGGGGCGGGGGCGGGGCGTGTGCTCATCTCCTGCCCACACTGCTCCAGGGATGGGTTCTCTCTCCCAGGTGACCACCCGGACTCCAGCCCACACTCGGCCAGGTGGGGCTCCCCCTCGCCCCATAGAGAGAGCCCCCTTTCTCCTCCCCACACCGGGTCATACTTGCCCTTTCCAGACACCTGCTCATCTGCTTGGATCTGCCCCGGCACTTTCCTCCCCACCCCTCAAAGAGTCATCTCTGCCAACAAAATCCCACTTGACATGTTGACCCAAACAGAGCATAATTCAGGAGCTAAAAGGATAATTTTCACTTCCATGGAATCTTTTTTAGCACTTAAAAACTTTTTTTTTTAATACCTTAATAGATTTTTTTTTGGTAGGACAGTTTCAAATATGTAAATAAGTAAAATATAGAAAATAGAAATTCTTCATAATCTTCCTACCCAGATTCAACTTAAAAGATTTTGGGGAGAAGAGATTCTTTTAGACTCTGTAAATGTGATTTTAAAGGGAATCCGAAAGCATCTTTTATTTAATAAGCTGCTTAGAAAAAAGAACTTACAGGGACTTCCCTGGTGGTTAGGAATCCACGCTTCCAGTGCAGGGGGCACAGGCTCAATCCCTGGTGGAGGAACTAAAATCCCCCATGCTACATGGCATGACCAAAAAAAAGGAAAGAAATAACTAATTATATCGTGACCAGCTTTCCATGTCATAACTTTTTTTCATTTTTGTCATTTTTTGTTATTCCTCCCTGTTTACCCTTTCCCCAGGACTTGAGATATGAGCCAGAGAAACATGCAAACAAAAATTTTAAAATAAAAAATTGACCAGGATAGAGCTTTTGTACTTTGCAGAGGAGAGTTGACAAGGAGACACAGGCACATAAGGGAAGCGTGGAAGGGGCTGGGAGAAACTTGTAAACAGCAGTGGAAGGAGGGAGGACCCTGGGGGAGTAGAGAAAGGCCTGACGTTGTGCATGCGGTTTGGAAAACTGTGGTCCTTTTACAGATTCCAGGCCAAGTCAGCAGCTTCTATACGGCTGGAGCTGCTGCTTGACAGGGGCGGGGTGTTGGGGGTGGGTGGCGCTCCGTGCTTTAATGTGCCCCTCCTGTGGCAGATGCAGTGTGGCCCCTGGCACATGGCGAGGACCTGGGTGGCACACGAGTCCGATCAGCCTGTCACTGCCCGGGGGTGTCCTTGTGCTAACTGTAGAGGGCAGCTCCATGTCTGAACGCCTGTGGGTTTGTGCTCATTACCTGTCACCATCTCTGGGTGACTCTGGGATGGCTACTGCCCAGAGCCCATGAGTAAACCCAGAAACATGAGGAGGCTGGGAGGCTCCCACCCCTGCCTGCCTTGTTCAGTTTGTTGCTCTGTCTCCCTGGCTGCCCCTGTGACCTCTGTGGTTGCTCAGAATCCTGGCAGAAGCCAGTCTTGGTGCCCAGAGGGCCTTGGGCTCTCTCCCCACTGGGATGCACTGCTAACGCCCCATAGCAGCATGGACCCACTTCCCTACCCAGGAGGCCTGGTGCCTAGGAACCCTAGGTCATACCAGGGGGACTGGGTGGGGAGGAGGCTCCTCCTGGAATGTATGAAGGAGCCGTGGGGGCTCGGGGGCCAGGTGGGCTGACCCTGTGCTTCCCATCCCTGCAG
Seq C2 exon
GACATCAACAACGCATGGGGCTGCCTGGAGCAGGCGGAGAAGGGCTATGAGGAGTGGCTGCTGAATGAGATCCGGAGGCTGGAGCGGCTCGACCACCTGGCAGAGAAGTTCCGGCAGAAGGCCTCCATCCACGAGGCCTGGACGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018255:ENSBTAT00000024301:10
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:
CATCCCATGGCTGGAGAACC
R:
CTCGTGGATGGAGGCCTTCT
Band lengths:
343-2064
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development