BtaINT0113829 @ 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
chr19:45719320-45720689:-
Coord C1 exon
chr19:45720532-45720689
Coord A exon
chr19:45719801-45720531
Coord C2 exon
chr19:45719320-45719800
Length
731 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGC
5' ss Score
9.37
3' ss Seq
CGCTTGCGGCTTTCTCCCAGGTG
3' ss Score
8.19
Exon sequences
Seq C1 exon
ATCGCGGACGGGGTGTACGAAGGCTTCCTCAAGGCCCTGATCGAGTTTGCCTCCCAGCACGTCTACCACTGTGACCTGTGCACCCAGCGCGGCTTCATTTGCCAGATCTGCCACCACCATGACATCATCTTTCCCTTTGAGTTTGACACCACAGTCAG
Seq A exon
GTATGCAGACGCCATGCCGGCCACCCTGCCCCACCACTCCCACCCCTGGTTGGGGGGCAAGTCCCAGGTGCCACTGCGAGGGGGACAGGCCAAGCCCTCACAGGACTCCCTGCCTCCCCCGAGCCACCCGTCTTCCTAGGGAAGAGGTAGCTGCTGCCCTTTGAGTTGCGTGGGGAGGACCTCACTTTTGTCCTCTGCAAACGGGTGGAGGAGGGGCTGGGTGAGTTACTGGCCTGGAGTGCTGGCACAAGGCCGGACACAAAGTGGGCACCTGGTGGGCAGTACCTGCCACTGCCTCTGCCCTGTAACAATTGTCCCCAGTCATCACTCATTATCAGAAGCCTCTAAATGGAAAGAGGCCTCCATCAAACTTCCATTCCAACCCATGTGGGAGTGGAAAACTGAGCCGGTGGGAGCATCCGTTCATTTTCAGCAGATGTCCCCAGACCCAAACTCGACCCCCCCGAACAGACCTGGGGCTGAGTTTTTTAAATCGTAGAGTGTTTGGAACACAGGCAAGGAAATCAGTGAGTCTCGGTAGTATTTATAAGGGAAATACAATAGAGGGCATCGGTGTGCATCGTGGGGCTTAGAGATCAGCACTGCGGCGAGAACCTTTTGTCCCAGGATGGAGAGGCAGTGCCTTGGGTGGCCGGCTCTGGTCAGGAGCACCGACCAGCCTCGAGCCCCGGAGGCTCGAGGTCCCAGCAACGCTTGCGGCTTTCTCCCAG
Seq C2 exon
GTGCAGCGAATGCAAGACCGTCTTCCACCAGACCTGCCAGGCCGTGGTCCAGAAGGGCTGCCCCCGCTGTGCCCGCAGGCGCAAATACCAGGAGCAGAACAGTCTCACCTAATCCCACCTCTTGTCCCCACCCGGGACCCGGGGCTCAGCCATCCCAGCCGGGTTGGCCACCAGCCTGGCCACACTCTCAAGGTGTCACAGAGCCAGGAAGACTCTCAGATGAGACCAGAGGACTGGCCTATGAGAGGGAGCCCCAGGAGCCCCTGATGACACCTCCTATCCCCCAACTATCTGCTCCAGGAGGCGCGGACACCAGCAGGTGCCCCCTGTCCGACGGTGTGGGAGGAGGGGGCCTTTGCACTAATCAGCCCAGCACCCCTCACTGACACCCCATCCCCATGAGGGCTGTTCAACACTGTGGAAACAAGACTTGGGGAGCATTTTCAATTCCACATTCCTGATTAAAAGGTCTAGTTTTTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020359:ENSBTAT00000027135:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF139011=DUF4206=FE(24.9=100)
A:
NA
C2:
PF139011=DUF4206=PD(14.4=78.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGATCTGCCACCACCATGAC
R:
CTGGAGCAGATAGTTGGGGGA
Band lengths:
356-1087
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]