BtaINT0013370 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011215 | ACTN4
Description
Bos taurus actinin, alpha 4 (ACTN4), mRNA. [Source:RefSeq mRNA;Acc:NM_001098052]
Coordinates
chr18:48722388-48726979:+
Coord C1 exon
chr18:48722388-48722473
Coord A exon
chr18:48722474-48726886
Coord C2 exon
chr18:48726887-48726979
Length
4413 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCG
5' ss Score
9.67
3' ss Seq
AACCCCGTCCCCCGACCCAGGCT
3' ss Score
4.68
Exon sequences
Seq C1 exon
ACATCGTGAACACGGCCCGGCCCGACGAGAAGGCCATAATGACCTATGTGTCCAGCTTCTACCATGCCTTTTCGGGAGCGCAGAAG
Seq A exon
GTACCGGGCAGGGCCAGGCAGGCCCACCTCGCCGCCACCGCCCAATGCCGCTGCTGCCTCTCTCCTCCCGCACTCACCTCATTTCTCTTGCAGACGGCAGTGGCCTCTCTCCAACTGGAAGCCATCCCCCCGGCTCCTTGGCATCACCGCCCGTTTAGCCTCTCCCTGCTCGTAGTATCTCTCGAGCGCCTCAGAGCTCACCCCCCTCCTTCAGTGCAATACATACAGTCAGTGACCGAGTCAGGCAGGGCCCCTGCCCTCATGGAGCTTACAGCCTAGTAGGCAAGACAGACAACGAGCAGGTCCACAGAGAAAGTAATGTACATGAGAGGAGTAAGAGAGAGCACAGACAGCGTGGTGGGAGGCACTGGGATCCTCACTGGCGGGGAGAGGGCGATGAGCAGGAGCTGCGGAGTGTTCCAGATAGAGGGGGGAGCAAGTGCAAAGGCCCTGAGGCATCAATGGCGGGGCTTATGCAAGGAATGGCTGGGGAGCAGAGGAAGGTGAGGTCAGAGAAGGTGACAGAGACCTTCTGGGGAGACATTGTAGTCCTGGAGTTTGGGTTTCATTCTGAGACCCCAGGAGATGATTAGGGGTTTATGCTCAGGTGGTAGGTGGTCACACAGGACATGGATCCTGCGTATGTTTTCAGAAAGATCAAATAATGCAAGCAAGATCCCCCCAGCCCCAACCAAGGCTCCCGCTGTGTCCCAAACCCAGGTCTGGTTAGGAAAGGAATCTGTCCCTCTCAGATGTCGCCCCCTTCCCCTCTGCAAAACTTTGGCAAGACGTGCCCACGCAGGCTGGAGCCGGGGTCTGGCTTCCAGTCCAGAGCCAGCGCTATCCTTCCCGCATGAGCCTCAGGCCCGGCCTCAGCCGCCCTTCCTGCATCTTTCACTCTCTCCTGCCTCTCTCTCTCTCTCTCTGCGCAGATATTGTAGGCACTCTGAGGCCAGATGAGAAAGCCATCATGACTTACGTGTCCTGCTTCTACCACGCTTTCTCAGGGGCTCAAAAGGTGAGCTGGGGGCGGGAGCACCTTCACTGCTGTGGCCGGAGACTCACCCTTGCCAACCCCCGACCCCCACCACCATCCCACCATCCCAGTGTCCGGGCTGAGGACTGACCCAGCCTGGAAGGTTCTTGTGACCCTGAGCCTCCATGGCCATCACCCAGCCAGCACTGGTCCAGGGCTGAGACGCCACAGACAGTCCCACGAGTCCCTCCATGGATACAGCCCACCCTGTGAAGTGGCGGCTGGTCCCAGTTTTCTCTAGATAAGGCAGTCGAGTCCCAGTATCACCTCAGACAGCGGGGCGCAGCTGGGGCCTGTGCACCTGCTCTCAGCTGTCCCCCTCTTTCCCTGATCCATGCCAGGCCACCCGCCTGCCACACTGGCCATGTCCCCACTGGGAATGCTGGCTCTCCTGCCCTGCTCTGCGGCTCCTTCCCCCAGCAAACACCCCAGGACAGGCCTGTCTCTGATTCCAGGGGCCCAGGTCACAGGGCCCCTGCCCCCAGCAGCCCCACCACCGCAAGCAGGGAGTCAGAAGTGTCTGTTCCCTGGGGTGGCCCTCCCCGAGCCCAGCTGACCTCTCACCAGAGCTGCCCCTGCTGCCTGGAGGCCTGGACACCTCTGTCTCCTCCTCCTGCCTCCTGCATGCCTGGTTTTGGCCTGCAGTGTATTCCCAGCAATTTGATTCTGTGTCCCGGTTAGCAGTTGGGCAGAGAGCAGACCAAGAGATGAGCTGGTTATTGAGCAGTAACTCGTGCTTCCCAGGTGGTGCTAAGAACCGCCTGTCAGTGCAGGAGACGTAAGAGACGTGGGTTCAGTCCCTGGGTCGAGAAGATGCCCTGGAGGAGGACACGGCAACCCACTCCAGTATTCTTGCCTAGAGAATCCCTGGCGGGCTACAGTCCGTGGTGTCACACAGAGTTGGACACAGCTGAAGCAACGTAGCCCGCCCGCAGCTGCGTGCTAGGACCTCCAGACACTCCATGTGCACGGGCTGTCAGCAGCCCATGCCCACGCCGGGAGTGGCGGGCCCCGGTATCCCCACTTACAAGAAGGGGACACAAGTCACGGGATGGGGACTTTGCTGCCTGCCTCAGAACCCCAGGTCCAGCAAGGCCTTCCTGCGGGCAGTCTGCCAGGGGTCCCTGCTCTGTCGCCGCTCAGCAGTGTGACCTCAGAGAAGGCCCTCACCTCCCTTCTCCCACATGTATAATGGGGAGCAGACCAGCGCCCTCCTCAGGATCGTCTGAGGGTGAAATGAGCAGGCCAAGGGCTCAGGACAGTGTCTGGCCCCATGAGCGCCCCGCACACGGCCTGGCAGTGGGAGCAGCCTCCCCAGCACGTGGCTGGAGTATGTGTTTGATGTGTTCTCCTGGTGGTGGGGAGACTGGGGGTGCCTTTGGCACAGGCAGGGAGGTGGAGGGGACCCCTCACCCTAGAGGGAAAATGGGGTGGGGTGGGAGATTCTTGCCGCAAACCCTCACTGATGGCACGTTTGCTGTGGGCCTCCCTGCTCCACGGGCCCCTCGCCAGCCTCGCTGCTGCCACACTGCCCTGAAGGGCGTGTCTTCTCTCTGCCCAGACTGCCCTCTGGTGCTTATAGCAGGACTCCAGTGGGGGACCAGAGGCCTGGAGGCTCTGTGGGAGGGCATGCCGGCCGGAAAGCCCAGGTCAGAGCATTTGGGAGGTTTTTTTGGTGTTCTTTACTCCTAGGAGTTTGGGATCTTAGTTCCCAGAGCAGCGCCCTCTGCAGTGGAAGCAGGGAGTCCTAACCACTGGACACCAGGGAAGCCCCAACATCTGGGAGTTTTTGAGGGAGCTGGGCCTCTCTCGTTAGGGAGGAAATAAAGGCCAGCCTCTGGGGAGCTGTGGGTCACCAGGGACATGCAGCATACAGGCCTCTCCAGCTTCCTCCAGCCTGTTTACTTCTCAGGAGAGCCCCGTAATGCTTGTGTTATTGCCACCGTCTTTTCCCCAGAGGCTCCATCAGGCCCCTTAAAAGAGTGCTCTCAGGGTTTTGTTTCATTTCATGAATGCAGGGCAGCCCTAGTCCTTGCCCCATGTATGCCCATCCTCTCCTGCTGGTTTATTTCTTTCTACTCACGAAAGCATCTGCTCTTTGTCCTTTGCTCGCTCATTCATTCATCAGCTCTGAGTCCCTCAGACATGCCAAGCCCCAAGCCGGGTGCCAGGAATTCAGCCTCGAAACAAAACACTCCTGCCCATCAGCCCGCACCTTCGCGGGGCCTGCCTGGCAGGGTGGAGCTGAACTTGGGGGACCGGTCTGGTCGTCTCTCCAGGCTGGGGGTCAGGGACTTCCCTGCAGGCTCCGACCTGGGCTCTGCTTCCTGCGCTCACTCAGGGCTGGGTGTTCGCTGGCCAAGGCCTTCGCGAGCCTCCCCTCTGGGGCTCGTCGGCGAGTGTCCTGCAGCATGCAGCAGGTGTGCGTGTGCATGTGTGTGTGTACACACCAGCCGCAGCTGGCCCCCCACTCCCCTCCCCACCTGTGTGTGGAGGGGAGAGGCGGGCGTCAGCAGGGCTGGAGCCATCCCCAAGCCTCTCTGTTTTCCTTCCCCACCGCTCTGTAGACCCTCCTCACTATTTCTGTTCCTGTTCTGTTGCCGTTTTCAACTCTTCTTGGAGGCTTTCTGTGCTTCCTGAAAGGTACCTGGTCTCTGTGTGCCATCCCTCACCCTCCTCCTCCTGTCCTTGCATTCCCCGCCCCCCACCCCCCCAGCAGGACCCACCCTGTAGTTCGGGGCAGAGACTAGTCACTGTTGGCGCCGCGTCCCGCTCTCAGGAGCCCCGGCTCCCCTCCACCCTGTGGATCAGGACCTCTGCCCACCCAGCCAGCGGCAGCCTTCTCTAGGGGGGATAGGAAAGGGGCCAGGCGTGCTCTGCCCATGCACCCACCACCAGCCTGCTCTGGGGGACACCGGCACCCCCTCCTCTGCCCACACCCCACGGCTCCCTGGTGCAGCCTCCCTTCCCAGCCAAGGGGCGGGTCCTTCCAGGGTTCAGCTGCGTGGAGGACCCTACTCAGCCTCACTCAGGCCTCCTCTCTGTGGGCCTCTGAGTCCATTTCCCCCACATTAGGGTACTCCCCACCCGCTTCAACACTTCCAGGGTCCAAGCGGAGAGAGCACACAGGCCTGGCTCCCTGAGCAGGGGCCTTAACAGTCAGCTTCAAGGACCCCAGCAAGGCCTGTCAGGACTCAGCCGTTCAGGGCACCCTCTTGCTGGCTCTGTGCTTCCTCTCCTCCCCGCCTCGGGGCCTTCTGTGTGGGCCACGGACGTGCCAGCTTTCAGGGGACCTGCCTGTCAGGAGGGAGGGTCAGCAGCCCCCAGGCAGCCCTGACTGTGTGCGCTTTCCCCCCCAACCCCGTCCCCCGACCCAG
Seq C2 exon
GCTGAGACCGCTGCCAACCGGATCTGCAAGGTGCTGGCCGTCAACCAGGAGAACGAGCACCTGATGGAAGATTATGAGAGGCTGGCCAGCGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011215:ENSBTAT00000014894:8
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=PD(23.1=82.8)
A:
NA
C2:
PF0043516=Spectrin=PU(9.9=35.5)
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