GgaINT0143836 @ galGal4
Intron Retention
Gene
ENSGALG00000000201 | PLEKHM1
Description
pleckstrin homology domain-containing family M member 1 [Source:RefSeq peptide;Acc:NP_001026095]
Coordinates
chr27:1593742-1595712:-
Coord C1 exon
chr27:1595454-1595712
Coord A exon
chr27:1593977-1595453
Coord C2 exon
chr27:1593742-1593976
Length
1477 bp
Sequences
Splice sites
5' ss Seq
CCGGTAGGT
5' ss Score
9.39
3' ss Seq
TTGCATCCCTTTTATAACAGAAT
3' ss Score
6.6
Exon sequences
Seq C1 exon
GGTGCTCTCCGAGTTCAGGAAAGCTGAGCCGAGTTTCGGTGCCCCATCGGAGCAGCTCATCCCGGCCGTGCTGGGCTGCTCCCCGCCGCCCCCCGAGGACACCCACCCACCACCTTCCCCCCCACCAGCTGATGCCTGCGCTGCTCCCCAGGAGGAGGACAGCATCCCGACCCCACGGCGCGTGGATGGGGGGAAGGAGGGCCGCGTGGTGCGCAGCCCTGCTGCCAAATTCCTCTGCTCCCCGCTGCCGGGCTGCCCG
Seq A exon
GTAGGTGTCACAGCTCAGAGGATCCTCGTCTCATCCTTCCTGGCTAATGGGGAGGGGTGGTGAGGCGGGTGGCAGCATTGCTGGGCTTGAAGCACTCATCTCCAGAGCTGCCAGCAGCACTTCTGGTGTAAATAATGCCCAAATCCATTCCCAGCTTCCCGGATCCCACTGAGCCATCCTGGGGATGCTGGGTCTGAGCAGGCACCCCCCAGCACAATGAGTGCCCGCGTGCTGGGGATGCACTTCCCACCCCCCTGAGCATCTCTCCTTTGGGTCCGCGTTCCTTTGGCTCTTTCCCAGCTCTCCCGTCTCCACCGCTTCCTCCTGGCTTGGGGCCAGCCTGACTAATCTATGGATAACATACGGTGTCAACAGGAAACCCCCTCCTGCTCTGGCATGACTCACGGAGCAACCTGCATTCCTCATCCCGGGGTAAAACAGGGCCTTCCAACACCTCTTTGCTGCCCATTCCCACCATGGTTTTGTTTGTGGTTGGGATTAAATGCTCTTGGCAGGCAAAGGGGGGGCCGGTCCTGGTGGGGACCAACGTTACTGCACGTGGGTGCTGCAGGGATGCACTCCTCCTCCTGAGTCCCTCTGTGGCGTAGGGGGACAGAACCAACCTGAGTGTGTTTCTGTGCTCTCAAATCCCACCACTCCTTTGCAGCCGAACCCCTCAGCAGTCGGAGGGCACCGTGCATTGCACTTTGCTCCACTCCAGCAAAACCAGAAAGTGGTGTGGAGAGGAGGGCCAGGCAGCAGCTGGGTTTATCAGGGAGATAGAATCAGAGAGAGTCAGTAAGATTGGAAAAGGCCTCTAACATCCAACCATCAGCCCATCCCCACCGTGCCTGCTGGGTCGCATCACCGAGTAGAATCACAGAACTGTGAAGGTTGGAAAAGACCTCCAAGATCTCCAAATCCAACCCCAACCCATCCCCACTGTGCCCACTTACAGAGTCATTCAGGATGGAAAGGACGGTTGGATTTGATGATCTTGGAGGTCTTCTCCAACCTGAATGATTCCATGGTGGGGATGGGTTGGGGTTGGACTTGGGGATCTTGGAGGTGCACCCATCCCACCGTGCTCATTCTCTGAGTTGTTAAGGTTGGAAAAGACCTCCAGGATCCCCAAGTCCAACTCCAACCCATCCCACTGTGCCCATCATCCAGGCTGGAGATCTCCAAGGCCAACCCCAACCCATCCCACTCTGCCCACATGTAGAATCATTCAGGCTGGAGAAGACCTCCAAGATCTCCAAATCCATCCATCCACCCAAATCCTTCCCCCCACGCCCACCAAACCACGTCCCCATATGCCACATCTGCACATTTCGTGTCCCTGCACTGCAGCACACAGCCTGGATGTGCCCAAGCAGCCCGGATGGCTGCGCCGGGTGTGCACGGGGTCACGGTGGCTGTGTGTGTTTGAGTTGGTTGATGGATATTTGGATCTGTTGCATCCCTTTTATAACAG
Seq C2 exon
AATAGGAAGAGTTGGATCTCAGAAGACGATTTCTACAGACCTTCAGCAGGGGAGAGCGATGAAATCCCAGCTGATCCCAACGGCTTTGTGCCGGATGGGGCTGGGGAGGGCCCGACCTCGGGGCTGCTCAGTGCTTTGGATTTGGAAAGGCCGTCCCCACCGCCCTCCCAGGGCCCCAGGCTGTCCCCCGAGCGAGAGCAGAAGGGCTTCAGCGTCGTGCATCGCCGGCAGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000201:ENSGALT00000000267:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.839 A=NA C2=0.848
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCTCCGAGTTCAGGAAAGC
R:
AAAGCCGTTGGGATCAGCTG
Band lengths:
343-1820
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]