HsaINT0097941 @ hg19
Intron Retention
Gene
ENSG00000102897 | LYRM1
Description
LYR motif containing 1 [Source:HGNC Symbol;Acc:25074]
Coordinates
chr16:20926878-20931536:+
Coord C1 exon
chr16:20926878-20927036
Coord A exon
chr16:20927037-20931443
Coord C2 exon
chr16:20931444-20931536
Length
4407 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
TTCTTTCTCCCTTTTAATAGCTC
3' ss Score
9.01
Exon sequences
Seq C1 exon
ATGACAACGGCAACACGACAAGAAGTCCTTGGCCTCTACCGCAGCATTTTCAGGCTTGCGAGGAAATGGCAGGCGACATCAGGGCAGATGGAAGACACCATCAAAGAAAAACAGTACATACTAAATGAAGCCAGAACGCTGTTCCGGAAAAACAAAAAT
Seq A exon
GTAAGTAGGCCCCACTTGGAGATTGTGCAGAGGAGAGTTGTTCCTTATGATATTTGTTTATTTCTTTTCGGTCTTTAATCAAGAGGGCTGAGCCGCACAGTCATGGTGGCAGAACTTGGGGCAGGAAGGGGCCAGTGCACAGCTTGGCTAGCTTGCCTGACCACTGGGAAGCCTGTGTTTCTCTCTTCACTTGTTCCAGGTCTCAAGCCAGCCAGTAAGTGGCTCAGTGTCCTCAGAAGACCCTATGAGCCAGGTGACATGAGCAGGCCAATGAGTTTTCAGAGGAGGAGCCAGTCCTCATACTGTACCAGTTGCTGGCCACTCCCATAGGAGGTGTGCAGGAAAGTGGTTTTTTGTTGTTGTTGTTGTTTTTTTTTTCAATTCATAAACTATTCAAAGCCTCTAAATATAAACCCATTTAGAAGGAAGAGAATAGGATTAAGACACAGGGTTTCCTTCATAACAGCTTTGAACTCAAGCCTCTTTGGCTAGCAGAGTGAGATTGCCCTTTGGGACCACAGAACTGGGTAAAATAGTGTCTCCATTAGCTGGTTTAAGGGAACTGCACACACAGCAGGGAGCCAGATTGGACCACCCCCCTACAAACCCTAAAGCGTTAGCTGTTAGCTCCGGGGAAGACCTCCCGGCACTAAGCATGGAAAAAGGCTTTCACACCCGACTTCTCTTCCGTCTCCTCACTGATCTAATGGATTCAGCGCGGTCACTGCTCCCCTCATGAAACTTCCTAACAGTCTACTCTCACCACTTTTCCCTCTCTGACCTCTGACTGTCTCTCTTCAGCCGTGTCATCACACACCCTCCCGCCAGCTGCAGGGGTCCTCTGAAGGTCAGCCCTCTGTGCTGAGGCCTGTGCAACATGCAGCCACCTTGTGATTTAAGCTGTCACATCTGAATCCCCAGCTTTGGCCTCTGCCTGGCCACCTGAAGGACCTCACCACGGCTCAATGGTCCAAAGCAGGGTCATCTTTCTACAGGAGTGCCTCCCCTTCCCCACTGGCCCATTGGTGTCACAGCTCCTGTCACCACTCTGCAACTCTTTGTTCTCATTCCTCACTCAACAAATATTTGATTGCCCACTATGTGCCAAACACAAGACTAGATGTCGAAGACAAACATAAGCCAAACCAAGACACATCTGTCAAAGGCATTTGAGTTAGATGGAAAGAAATATAAAATTACAGTTGGGAAAAGTGCTACAAAGGCTGGACATGGTGGCTCACGCCTGTAATCCTACCACTTTGGGAGGCCAAGGCTGGAGGGTCAGTTGAGCCCAGGAGTTCGAGACAAACCTGGGCAACATAGCGAGTCCCTGTCTCTTAAAAAAAAAAAAAAAAAAGCGTTACTACAGAAGCCCTCCTAATCTGCAGCAACTTCCCCTTCTCTGAATCCCTGATGCCTCTAGCTTTTCAAGGCTGACTTATGAAGTTTCTCTCTACCCTGCTGACCTTCCTCCAAACCCAGGTTCCCCAAACTTTTTCTGCTCTTAGCATAGACCATGCTTGCCAAACCAGAGTATATGTACCCCATGAGGTCCTTAAACAATCCTCTAAGGAATGGAAATAAAATACAACTGCTATTTCTATTTATCCTTTCATCTTTCTAAAAAGTCTGTCTGGTACACAGTTACAATGAACTTGTTAGTACATATATATAATTTATAAATTAATACATTTATAAATTAATATAAATACATATATGGGGCTGTGGGCTCAGAAATATTTCAATGAAAAGAGTAGGTGATTGGCCAGGTGTGGTGGCTCACGCCTATAATCCTTACACTTTGGGAGGCTGAGGCTGGTGGATCACTTGAGGTCAGAAGTTTAAGATGAGCCTGGCCAACATGGTGAAACCCTGTCTACTAAAAATACAAAAATTAGCTGGGTGTGGTGGTGCACACCTGTAGTTCCAGCTACTCAGGAGGCTGAGGCACGAGAATTTCTTGAACCCAGGAGGCAGAGGTTACAGTGAGCCAAGATCATGCCACTGCACCCCAGCCTGGGCAACAGAGGAAGACTCTGTCACCAAAAAAACCAAAAAAAGAGTAGATGATCAAAAGGCTTGGAGATCCCTAAATAGTTGTTTATATTCTCCTTTTTTCTTCTTTATTTTATTTATGTTGGCATGGTTTTCCCAACCAGATCATCAGTTCCTTGAACATATAGACACGTTCTTATACTTATCTAGTATATCCCAAGGGACCTCCTTGTGGTTGTCACTAAATGAATGAGCAGCTATAAATACTTTGATTTAACTGACCTCCTCCAGGAAATCTTCCTCAGTTTCTCTGCTTCCCCCTCAACCCCATGCTGGCCGCCTGTTCTGAATTCCTATAGCTGTCTGTAGCAGTCACTGCATCCATTGATTATATACCACTGTGCCTTTTCTGTAGCTTCAGGTATCAGAGTTGTTCTGCCCAAGTAATAACTTTGATAGTTGAAGGCACTGTCCAGCCTGCGGTATTGGGGATATCATAGTACATGCCCAATAAACCTTTGCAAGCTCACTCACCTGAAGACTACTCAAGAGTTTCGGTTTTCAGTTATCGCAATAACCCTTCCTTTGCCTCGGCTTGGATTGGCTCGAGGAGTGAGCCAGAGGGAGGTGTATGTGCCACTGATGGTACATGAGATTATTTGGGAGTGGGCGGAAGAGGTACATGGGTTCTTAATTTTAAGATACGTACTTGCTTTAGCATGTGTTATAAAGGACAGAGAATATTAGACCACAGTTTCACAAATGCTATTGCTTAAGAGAGTCCATTTAATGAAAAATTTTAACATTAGTATAAGTAGTATGTGGATATGGCAGAATCATGCAGCCAGCCCGTGAATGACTGAATTTGGAGTACTGTAGCCCAAGCTTGTTCAGATAGACAGCTGAAGCCCCAGAAGCCCCAACCCCCTTAACCATATCTTTGTCAAGGGCTTTTTCTTTCTTCCTAGTCCCTCATGCAGACATAATGAGTTTCTTGTAACTTTGATTACTCTTAAGAGTTTAATAATCCAAAGGTATCCCATGAACTGCTCTGAATCTCAGTGGGCAAATGGGAACATGGAACTCTTTTCCAACACAGACAGCAAATCAGTGGCTTCTGAGAAGCACAGAGGTCAGAAAGTTGGGCCTCTGCCACAAGGGACTCACAGCTGTGGTTCTCTGCATTGCTGTTCCTGGAACTCTTCTCTGCTCCAAGAGGTACCATAGGACAGGAACGCCCTTGAAATTTCCAAGCCACATGGACCCAGACTTTGCTGCGTGGGTGTCATCTGGTGCTGATGCAATCCTAGCTCAGCTTTGAAGTCCACTTGCAAACTCCTAGCAGAGCCACGTCTTGATTCATTTTCCTACCTCATAATGAAAGAGTTTCTCCCTTTTTCCTACTTGGCTGTTTTTCAGAATGAACTTTTTATTCCTTTAATTGAGAGTGGATTACCATGATTTGACTATTTTGGAATTTCAAAAGCCCTTTGTTCCCCTTACTAATGAGCCAAGGCAGTTGACAGTTTAAGAGGTGTAGATCATTCTCCAGTGTCCTACTCTGGGGGTTTCAGGACAGCACTTGCAGAAACCATGGGGTTACTTTAAAGTTTAATCAACATGAGGGGGGTGTGAAGAAGCACTCTCAGTCAGTGTCGGTGAGAATATAATTTATAGATTGTTGGTAGGAATGTAAATTGGTGTGAACTCTAGAGAGTAATCTGGGAATATCTGTGAGAATTAAAAATGCATGAATCTATGCCTTTGTCCTAGCAGTCCTCTCTCTCTAGGAATTCATCTTTTAGATACATATGCATGTAAGCAAAGTAATTTTAGAGAGATCCATAGCGGAATCATTTATAATAGCAAAAAATTGGAAATAACTTAATTATCCATGGGTAGGAGATTGGTGAAATTATAATAAAGCCTTCTGTTGGAATTTTATATAGCTGTTAAAAAGAAGGGAGCAGCTCTATAGATAGAATATAGAAGGAACCTCAAGTTATGTTCATGAAAAAGCAAGGTTCAGAACAAAGGGAGCTATTGTTTGTGTGAGAAAAATAATCAGCTTCTACATACATGTGCATTTTCACATATACATAGAATACCCCTGCAAGAACACACAAGAAACTGCTAATTGTTGTCTCCGAGATGAGGAACTGGAATAGAGGAGTAAGAGGGAAACGTAGTTCTTATGTTACATCCTTTTGTATTATTTGAATTATTTTTACCTACTTTAACGATTTTAAAAGTTTATGGTAAGCTTTAATATTAAATTGCTTTTGATTTTCCAAATTAGTAACATTTCATTTACTGGCTAGTGAACTAAAAAAGTTTGAGAAAATGTATACCTATACTCTATGTACCATTAGAAAGATACTATCAGCCTCATTTCTTTCTCCCTTTTAATAG
Seq C2 exon
CTCACGGACACAGACCTAATTAAACAGTGTATAGATGAATGCACAGCCAGGATTGAAATTGGACTGCATTACAAGATTCCTTACCCAAGGCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000102897-LYRM1:NM_020424:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.008 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0534710=Complex1_LYR=PU(68.7=86.8)
A:
NA
C2:
PF0534710=Complex1_LYR=PD(28.4=61.3)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)