BtaINT0021679 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015278 | ARPC5L
Description
Bos taurus actin related protein 2/3 complex, subunit 5-like (ARPC5L), mRNA. [Source:RefSeq mRNA;Acc:NM_001034737]
Coordinates
chr11:95864183-95865398:+
Coord C1 exon
chr11:95864183-95864255
Coord A exon
chr11:95864256-95865221
Coord C2 exon
chr11:95865222-95865398
Length
966 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
CCTTTCTCTTTCCCCTGTAGGAG
3' ss Score
12.82
Exon sequences
Seq C1 exon
AGGGGACATGCTCCGGGCATTTCACGCAGCCTTGCGGAACTCTCCTGTCAACACCAAGAACCAAGCCGTGAAG
Seq A exon
GTAAAGGGGGTCGAGCCGCGGCGCTGCTGGGCGGTGTTGGGACCAGGGCGTGAGCTCCCTGGGGCTCTGGACAGCATGTGTCTCACTCTGCATCAGTGAATCTCTACCAGGGAAGTGAGCTGGCAGCGGGCAGTGTTTCCACAGAAGCTGCCTGGCGCCCCTGACACCAAAGCTGTCAGTGTTTGTAGTAAACACTCCCCAAAGAAACGTTCATTCCTCCCCAAAGCCTCATGGGGTGAGAAGTCAGCCCAGCCCTTCCTGATGAACAAAGTTATAAATTAGCTTGCCACATGGGACTTAGTGGTTATGCTTTTATAAGCTATCGAATAGGCTTTATTTGCATAAGGATTTTCAGTGTTTTATGATTTCTGCCTCTTAAAAACAGGTGAGATGAGACACTTGGGCAGACCGCATCGGTTAGGCTGCCTAAAATCTCATCAGTGAGGCTATCTAAAATTTGGTCCAGGGAAAGGGGTCTCTTTAGAGCTGGGTTTTTTCCTATGTTGTGATGATATCTTGATTTAATCAATGGCTGCACCTCTCAAACGTGGAGGGGAATGGCCCCTTTGTTCCACTGGGAGTGAGCACAGAAGATACGGCCAAGGAAACTCACCTTTTGCTATGTGGGGGGTTTGTTGTTTGTTTTTTAAATATGGGAGTTTAAGGCCTTGCTGGTGTCATCAGAAGTAGTGATTCTTCTCCCCAGTAAACTGCTTATTTCCCCTCAGATAAGTGGAATAAATCATTGGCTTTGAATACTTTGGGATACTTTGAGACTTAATAAACAAAATTTCACTATATATATATATATTTTTTTTTTTTAAGCATTGCAAATGAATTAGAAATTGGGCAGTGTTCCTAATGAGTTCTGACTACTTGCTTTGGTGTTTCAGAGCCTGCAGTGCAGGATGTGGGTATGCCTGGGCCATGGCTCTAGACCCCATTCCCTTTCTCTTTCCCCTGTAG
Seq C2 exon
GAGCGGGCCCAGGGCGTGGTGCTGAAAGTGCTTACAAACTTTAAGAGCAGCGAAATCGAGCAGGCTGTGCAGTCGCTGGACAGAAATGGCATTGACTTGCTAATGAAGTACATTTATAAAGGGTTTGAGAAGCCCACAGAGAATAGCAGTGCAGTGTTACTCCAGTGGCATGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015278:ENSBTAT00000020318:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.240 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF046999=P16-Arc=FE(16.4=100),PF093845=UTP15_C=FE(20.3=100)
A:
NA
C2:
PF046999=P16-Arc=FE(39.7=100),PF093845=UTP15_C=FE(49.2=100),PF040037=Utp12=PU(91.9=96.6)
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:
CTCCGGGCATTTCACGCAG
R:
TTTCATGCCACTGGAGTAACACT
Band lengths:
238-1204
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development