GgaINT0143838 @ galGal3
Intron Retention
Gene
ENSGALG00000000201 | PLEKHM1
Description
NA
Coordinates
chr27:1494914-1496886:-
Coord C1 exon
chr27:1495993-1496886
Coord A exon
chr27:1495088-1495992
Coord C2 exon
chr27:1494914-1495087
Length
905 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAT
5' ss Score
7.25
3' ss Seq
GACCCACCGACGCCGTCTGGGTT
3' ss Score
-4.68
Exon sequences
Seq C1 exon
GTCTCTCCAACCCATTTCGGGGACTCCTGAAGCTGGGCAGCCTGGAGCGGCGCGGGGCCATGGGCATCTGGAAGGAGTTCTCCTGCGAGCTGTCGCCGCTGGAGCTCCGGCTCTTCCTGGACCACGAGGACCGCATCTGCGTGGAGAGCTTTTCCCTGCTGCGCTGCGAGTCGCTGGCGCTGACGCATTCGGATGGACGCTTCGAGCTGGTGTTCCTGGGGAAAAAGCTCTGCCTGAGGGCTCCTTCCCGGGACGAGGCTGAGGACTGGCTGGATCGGATCCGCGAGGCGCTGCGCAAGGTCCGCCCGCAGCTGGAGGAGGAGGAGTGGGAGACGCTGGAGTACCCCGAGGACGGTGGGGATGGCTGTGAGCCCTCTGCTCCGCTCCAGTATGAAGCACCTGGGAACGGCTTGGACTGGACTTTATCCCACAAAGCAGAGCTGGATGCCATCAAGGAGTCCATTCTGTACGCGGACGTAGATAAGACGTGGGTCCCTTTTATATTTTCCCTCTCACTGGAAACCTTGAAGTGCTTTAAAGTGCGGAACAACGACAAAATCTTGAGCAACAGCTATGGCATAGAGACGATCCAGGACATCCTCCCCGACACCAGCCTGGGGGGACCCTCCTTCTTCAAGGTGATCACCTCCAAAGCTGTGCTGAAACTGCGGGCCGAGAGCGCGCAGGAGGCTGCGGCATGGAGGGAGCTGGTGCGAGCGGTGCTGGGCTCCTACCTGGAGGGAGCCGAGGAGGCACTGACCCTGGGGGGCGGCTTGGACGGCCATTCCCAGGTGCTGCTGAAGAGCATGGTGAAGGAGAACGGCTTCTTGTTGCAGTACCTGGTGGCCATCCCCGTGGAGAAGGGGCTGGACTCGCAGAGCTTCATCTGCGCAG
Seq A exon
GTAGATGGGGCTGGTTTGCAGTGAGGAACCCAGCTCTGCATTGTGTTCATTCAGGTTAACGAGGTTGTGGTGTTGCCCCTCTGTTGGGCTTCAACCCCAAATTCTGTGCTGTCTTTGGCACACGGAGAATCCCCCAGCACCGAATCTCCGTCCCCATCTCACCCAACGCATCAAACCATGCTCTGCTGGGGTGCTGCCCAAGAGATCTGCAGTGTAGGCAAAAGGTTGGCTGTAAGCAACCTCATTTGGAGCTGATGGACCCCCATGGTGGGCATCCAGTGCCCACAGCCCACAGGGAAGTCATGCTCAAAGGCAATCCCGTGGAGCAGGGCAGTTTTTCCAGTAAGGCTGCTCTGGGTGTGACAGCTGGTTCGTGCAGCACTCGCGTGACCTTCCACCGCCTCCTGGTTTAATGGCATAACACCCACTGACCTCTCTGGGAGCTATAATTTCTTCTGTACCTCGCTAAGATAATTAAGCTTCAGCTTTTCTCATGCTTCAGTTGTGTTTCTCATCCCCTCCAGCAGGTTCTTCCTTAATCTTTTTTCCATATTTTCCATTTTTCGGTCTCTACCTTCCCCCCAGGCTGTGTTCTTCCACCTTCCAACAGAGGGAAGCAGCAAACTGAGGACACCCATCTCCCTTCCCCGTTTCTTTGCTTTGCATTTCCTTAGGTGTCTGCTGCCTTCCAGCCCTGACACCCGTTAGGACAGGAGTGGTTTCCCAGTGTGCCAGGGTAGGAGAAGAAATGTAGGCTTCTTTTTTTGATATGCAACACCCGAGCTCCATAAAACGTCGGCAGTGCACTGCAGATTGCAAATAAGTGAATGTTGAAGCTTTCTGGAGGGTGATGGGGTGGCCCTGGCTCTTCCTGGGGCAGACACAGACCCACCGACGCCGTCTGG
Seq C2 exon
GTTGTTTTAGAGAAGTGAACCCATTAAAAATAGCACCCAGAGTTTTCCTGTCTTCACGACTCCGTTCAGATGGAGCAGCTGTTCAGAGCACTGTAGCTCTCCCCCAGGAGCTGAGCCAGGTTCCCCTGGCTGCAAACACCTCAGTGTTTGCTTCTCCCATCCCCAGGCGATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000201:ENSGALT00000040720:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.047 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCACCTCCAAAGCTGTGCTG
R:
GCTCTGAACAGCTGCTCCATC
Band lengths:
342-1247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]