BtaINT0113828 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020359 | PLEKHM1
Description
pleckstrin homology domain containing, family M (with RUN domain) member 1 [Source:HGNC Symbol;Acc:HGNC:29017]
Coordinates
chr19:45720532-45721495:-
Coord C1 exon
chr19:45721429-45721495
Coord A exon
chr19:45720690-45721428
Coord C2 exon
chr19:45720532-45720689
Length
739 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
CCGGCACTTGCCCTCCACAGATC
3' ss Score
8.92
Exon sequences
Seq C1 exon
AAGGCTCAACCACAGGAATTATCTCTTGGAGTCGCCTCACAAGTACAGTGTCGCCGACCTCCAGCAG
Seq A exon
GTGAGAATGCCACCCCTGAGGTGTGTGTTAGTCGCTCAGTCAGGTCCGACTCTTTGCGACCCTATGGACTGTAGCCTGCCAGGCTCTCTGTCCATAGGGTAGCAAAGAGTCCAGGCAAGAATATGAGAGTGGGTTGCCATTCCCTTCTCCAGGGGATCTTCCCAACACAGGGATGGGACCCGTGTCTCCTACATTGCAAGCAGATTCTTTACTATCTGAGTCACCAGGGAAGCCCAGAGGAACCTAATTCCTAGAAACTTATTCCTGGAGAAATCAGAAAGGGAGATGTTGGGGCAGGGGCTGCTGGCTGCAGTTTACTGAGGCAAGACGTCCCATCTTCAGCCTTTCAGCAGCTCAGAATGGGCGTCCAGCCATCCACGCTTCCTGGGGCAGTGACTGAGCCCTCGGTCCCACTGGGACAGGCAGGCACCACAGCCAAGCCCAGGATCACAGGGCTCAGCTGCCTTCCAGGTTGCGAGGGCGTAGGGAGGGTGAGGGTTTGGGACATTCCCTTCCTCGAGGGAGGGGACAGTGGATTCCTCTGTGCACAGGGACCGCACACCTGCATGGCTCGGCCTCACTCGGGGAGGTTTGCTTGCCCAAGTGGAAGGAAACTCCTCTTGGGGTAGGAATGCTCCAGGCAGGGCGCCAGGAGGAGCAGCAGGCCACGTTCTGCAGACGGCCTCGGGCATGGCACGGCCTCTCAGAAGGCCTGGCGGCCGGCACTTGCCCTCCACAG
Seq C2 exon
ATCGCGGACGGGGTGTACGAAGGCTTCCTCAAGGCCCTGATCGAGTTTGCCTCCCAGCACGTCTACCACTGTGACCTGTGCACCCAGCGCGGCTTCATTTGCCAGATCTGCCACCACCATGACATCATCTTTCCCTTTGAGTTTGACACCACAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020359:ENSBTAT00000027135:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF139011=DUF4206=FE(10.5=100)
A:
NA
C2:
PF139011=DUF4206=FE(24.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGGCTCAACCACAGGAATTA
R:
ACTGTGGTGTCAAACTCAAAGGG
Band lengths:
222-961
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]