BtaINT0013367 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011215 | ACTN4
Description
Bos taurus actinin, alpha 4 (ACTN4), mRNA. [Source:RefSeq mRNA;Acc:NM_001098052]
Coordinates
chr18:48718311-48720361:+
Coord C1 exon
chr18:48718311-48718398
Coord A exon
chr18:48718399-48720282
Coord C2 exon
chr18:48720283-48720361
Length
1884 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CTTGGCCTTTCCATCCCCAGCTG
3' ss Score
10.39
Exon sequences
Seq C1 exon
AGACCTCTGCCAAGGAGGGGCTCCTCCTCTGGTGCCAGAGAAAGACGGCCCCGTACAAGAATGTCAACGTGCAGAACTTCCACATCAG
Seq A exon
GTGAGCGGCTGGCTGAGGGCCTGGCCCACATCATCCCCACGCTGCTTCCCAGGACTCGAGATGCTGGCGGGCCCCATCCCCACCCCCACCCCCACCCTGGCCCTCTTCCTGTGGTTTTGTCAGGGTCTGTGAGGTGCCAGCTCTCAGGAGTGCCCCCCCCAACTGGCTTCCATGAACCCCTGGGAAGGTCCCTGCGTGCCTTGGGGGAGGTGGCAGTCAGCTCACTGTCCCGGGCTGAAGGCCTTGTGGCCCAGCACTTCTGGGAGGCCCTGTAGAGTCTTCTTCCCCAAGTCAGGTAACTCAGAAGCAGCAGCACAGCTCTTCCTTTGTTTTGACATCTCAAGAGGGAGCTGCCGTCCCCGTGAGTTTAGTGTCGGGGGAAATGTGCCCTGTGTCTATTAGCGGAACAGGACTCAGCCACAATAAGCCTGCTCTCCCTCTGGTCAGGGCAGAAAATGAGTGTGTCCACAAGGCAGGCATGGTCAGTGGGAGATCTGGGAGTATGGCACGGCCTGGGGATTAGGCGTGCAGGCTTTTGGGTGGCCTTGAGACCAGATCTGACATGACCGTGACTTGACCCCTCTGAGCCTCTGCTGTCTTTCTGGGGTGGATGGTCCAAGGAGAGGGCAAACACAGGGATGAAGAACGGGGTTTTCCATCGTCCACGGAGGTCCTGCTGTGTCCTCGGGCTCCCCAGGGCCCTGCACTGGGCATCGGGGACCATTGTGCTCAGCCATTCATAGCGTGCAGTCCCTCCCTCGATCTCCTCCACGTCTCCTTCCTTCCCAGCTAGCTGGTCCTCCGTGCACTTCTCATTCGTTTATTTATTCAGTCACTCAGTACCTGTGGAGTGCCTACTCCATGCCAAGAGTGGGAATACACTAGCGCTAAGATCAAGTCCCTGCCCTTGGAAGGTCACACCTCAGCCGGGGACCAGCAGTTCCCAAAGGTGTGCAGGAACCGGCCTAATCCAAGTAGTGAGAAGGGCCGAAGAAAGACAACGAAATAGGATGAGGTGGCAGAAGGTAACCAGCAGGAGTGCCGTGCTCAGAGACGGGGTCTGTGTGAGACGCCAGAAAGCCTGACCTCCAGAAGAGCCAGCCCTTAGAGCAGCGGCCCCCAACCTCTTTGGCAGCAGGAACTGGTTTCATGGAAGATAGTTCTTCCACAGACCATTCCTCTCTCTGAGGGTGGGAGGCGGGGCGTAGTTTTGGGATGATTCAAGCCCATTCTATTCACTGTGAACTTTATTTCTAACCTGATGCTGCCGCTGACCTGATAGGAGGTACCTGTGTACACCCCAGAAGTTGGGGACCCCTGCCTTAGAGGTTTCCGGGCAGGGAAATGTGACCAGTCTGGCCTGTGACCAGCTGTCACTTCCCTCTGAACAGAGCCCCTCATGCCAGGCCACATCCTGGCATTTAGCCAGCACACCGGTCAGGTCAGCCAAGGTGCAGAGGGCCCGCAGCACGGGCCTGTCCGGTTCAGTGGGGCCACGCACGGCAGTGCTCAGCGGGGCACAGCTACCCCGGTAACAAGCAGTCATAAAGCACTTGTCACGTGGCAGGTATTGGCCTAAGCCTCACACAGTTACTCATCCTCACAACAGCCCGATGAAGTATAGGCACTGTATTATCCCTATTTGGCAGATGTAGAAACTGAGGTAGCAGGAGGTTAGAGGACTTGCCTAAGGTTGCACTGACAGCGGAAGGGGTGGGGTTTTCCCCCAGACGGTCTGGCTCCAGCAGCCAGGCTCACAGCCAGCCGGGCACACTCTCTAGACCCCCTCGCTAAGTGGGAGGTAGTCATTCCTGTGTGCTCACGGCCCATAGCCACTCATGACCATGGGGGCCCTCCTCACAACCTTGGCCTTTCCATCCCCAG
Seq C2 exon
CTGGAAGGATGGTCTTGCCTTCAATGCCCTGATCCACCGGCACAGACCAGAGCTGATCGAGTACGACAAGCTGAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011215:ENSBTAT00000014894:5
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:
PF0030726=CH=PU(24.0=83.3)
A:
NA
C2:
PF0030726=CH=FE(25.0=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development