HsaINT0097942 @ hg19
Intron Retention
Gene
ENSG00000102897 | LYRM1
Description
LYR motif containing 1 [Source:HGNC Symbol;Acc:25074]
Coordinates
chr16:20931444-20936328:+
Coord C1 exon
chr16:20931444-20931536
Coord A exon
chr16:20931537-20935321
Coord C2 exon
chr16:20935322-20936328
Length
3785 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
3' ss Seq
ATATTATTGTTCTTATTCAGATT
3' ss Score
9.29
Exon sequences
Seq C1 exon
CTCACGGACACAGACCTAATTAAACAGTGTATAGATGAATGCACAGCCAGGATTGAAATTGGACTGCATTACAAGATTCCTTACCCAAGGCCA
Seq A exon
GTAAGTGTGACTCCGGTTAACAAGTGCTGGGTACTTACCCTCATCAACCTGGTTATTTCCAAGAATGTGTAACAAGAGGGCGAGTGCTTGCTGAGAAGCCCAGAGCTGCTGTGGGAGGCATGTTGGAAATAAGCTATCATTGCATGCTGCCAGCCCATCACAACAAAGTAAAATGTCAATGAATGCATGACGTATCCTGCTTACATAGCTTTCCACGTATGGAAGGGAAAACCAGCTCACACTGTAGAGCTTTTTCTCTTTTCACTTTCATCTTTTTTATGGAAATGTGTTTAATTATAAAAGGCAGGTTTGTTGTTACTAAAAGAATAAAGTTCAAACATGAAAGGAATGCATAAAGTAGAAAGTAAAAATGGTCAAAAATTCTCATCCAGGCTAGGCACTGCGGCTCATGCCTATAATCCTAGCACTTTGGGAGGCCAAGGCAGGAGGATCACTTGAGGTTAGGAGTTTGAGACCAGCCTGGGCAACACAGTGAGACCCCATTGCTATACAAAATTTAAAAATTAGCCAGGCATAGTGACACACTCCTGTATTCCCAGCTACTTGGGGAACTGAGGTGGGAGAATTGCTTCAGCCCAGGAGGTTGAGGCAGCAGTGACCCATGATCACACCACTGCGCTCCAGCCTGGGTGACAGAGTGAGACCCTGTCTCAAAAAATAAATAAAACTTAAATTTATATATATAAATTTAAAATAAAAAAATTATATAAACTTAATACATTCAGAAAGTTAAGAAACAAAATAAATTTCAAATTTATATGAATTTAAAATAATAAATGTATATAAATTTATGTTTTCTTAAATTCTTTCATACCATAAATTTAAAACAATAATTTAATTTAAAAGAAGTTTTATTTATTTATTTATTTGTGGAGACTGAGTCTTCGCTTCATCACCCAAGCTAGGTACAGTGGTACAGTCATGGCCCACTGCAGCCTTGACCTCCCAGGCTAAAGTGATTCTCCCACCTCACTTCCCCAAGTAGCTGGGACTACAAGCATGTGCCACCACGCCCAGCTAATGTTTTAATTTTTTGTAGAGATGGAGGTCTCACTGTGTTGCCCAGGCTGGTCTTGAACTCCTGGGCTCAAGCAATCCTCCCACCTCAGCCTCCCAAAGCTCTGGGATAACAGGCATGAGCCACCGTGCCTGGCCAGAAATCTTTTTTGTTTGTTCGTTTTTTTGGAGACAGAGTCTTACTCTGTCGCCCAGGCTGGAGTGCAGCATGATTTCTGCTCACTACAACCTCTGCCTTCCCAGTTCAAGTGATTCTCATTCCTCAACCTCTCGAATAGGTGGAACTACAGTCGTGCACCACCACACCCAGCTAATTTTTTGTATTTTAATAGAAACAGGGTTTCACCATGTTGCCCAGGCTGGTCTTGAACTCCTGAGCTTAGGCAATCTGCCCACCGTGGCCTCCAAAAGTGCTAGGATGACAGGCGTAAGCCACTGCGCCCAGCCCAAATTTCTTAAAAAAAAAAAAAAAAAAAAAAAATTTCTCATTGTGCAGAGGGTGAACACTTTAACTGTTAAATGGAAAATTGCCAATATTCAACTCTTTTAGCTACAAAAACAGCAATTTTATATTGTAGTGGCTCAACCTAATTAGTTTGGTAGTATACCCTTTTAGTCTTTTTTTCTGTATTCATGTACCTACATTTTCTTTACATATGTAGGATTCTGGATATAATGTTATACTGCGTACTTATTTTACTTCATGTCTTCTGCACATCTTTGTATGTAGCTCTCCCTCAATCTTTTTTTTTTTTTGAGACAGAGCCTCACTCTGTCACCCAGTCTGGAGTGCAGTGACGCAATCTTGGCTCACTGCAGCCTCCTGGGTTCAAGGGATTCACCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGATTACAGGTACACCACCACACCCACCTAATTTTTGTATTTTTAGTAGTAACAGGGTTTCACCATGTTGGCCAGGCTGGTCTCGAACTCCTGGCCTCAAGTGATCCGCCTGCCTTGGCCTCCTAAAGTGCTGGGATTATAGGTATGAGCCACCACGCCCAGCCCAATCTTTTTTAAATGATTGCATTGTATGCTATTGTAAGAATGTGCCATTGTGTTAGGGTTCTTCAAAGAAACAGAACCAGTAGAATGAAGATATGTACATCTAGGGACAGCTAGATGTATATGTGAAGAGATTTATTATGAGGAATTGGCTCTCTATTTATCTAGACAGAGATACATCTAGATACGCCTGAAAGGAGTTTTTTTGGTTCTTTTTTTTTAGACGGAGTCTCGCACTGTCACCCGGGCTGGAGTGCAGTGGCACGATCTCGGCTCACTGCAACCTCCACCTCCTGGGTTCAAGCGATTCTCCTGCCTCACCCTCCCAAGTAGCTGGGATTACAGGCCCCCGCCACCATGCCAGCTAATTTTTTGTACTTTTAGTAGATATAGGGTTTCACTATGTTGGCCAGGCTGGTCTCAAACTCCTGACTTGGTGATCCGCCCACCTCAGCTTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACTGTGCCCGGCTGAAAGGAGATTTATTATAAGGAATTGGTGCATGTGATTATAGAGGCTGAGAAGTCCTAGGATTTGCCGTCTGCAAGCTGGAGACCCAGAAGAAAGCTGGTGGTATTACTCAGTTTGAGTCCACAGGCCTGAGAACCCAAGGGGCCAATGGTAGAAATCCCCAGTCTGAGGCCCAGAGAAGATGAGGTGTCCCAGCTCAAACAGGCAGGAAGCAAAAGGAGCCGCTTCCCCTTCTTCTGCCTGTTTGTTCTATTCAGGCCCTCCATGGATTGGATGATGCCCATTCACACTGGGGAGGGCCATGTGCTTTACTAAGTCCACTGATTCAAATGCTAATCTCATCCAGAAACACCCTCACAGATACACCTAGAAATGATGTTTAATCTGGGCACCCATTGCCAATCAGATTGACACAAAAATTAAGCATCCTAGGCCAGGCACGGTGGCTCATGCCTGTAATCCCAGCACTATGGGAGGCCAAGGCAGGTGGATCACTTGAGGTCAGGAATTCGAGACCAGCCTGGCTAACATGGCAAAACCCCATATCTATTAAAAATACAAAAATTAGCCGGGCGTGGTGGCGAGCACCTATAATCCCAGCTACTCGGGAGGCTGAGACAGAGAATCACTTGAACCTGGGAGGCCGAGGTTGCAGTGAACTGAGATCATGCCACTGCACTCCAGCCTGGGTGACAGAGTGAAACTGTGTCTCAAAAAAAAAAAAAAAGAAAGAAAGAAAAATTAACCATCCCAGCCATAATTTAACCAGCCCCTCTCTTGCTAGGCAGTTAGTTTGATCCCAGTTTTCTACTATGCACAGAACATCTTTATATACACACACTTTTCTCCCCTTCTTTGGATTCTCAACTTGCTATGTGATCCATGCTCGTTTTTTCTCCTCTATGCAGGCGATATAGCAAAGAGCACAGGCTCTGGAATCTGACAGATCTGGGTTCAAATCCTGGCTTCCCTTCTTAATGTATAACCTTAAGCAAGTTTTTTAACTTCTCTGAGGTTTCATTTCCTCATCTGTAAATATTAGAATAATAATCCCTTATGAGGTTGTTGTAGGATTAACTTGTGTAAAGATTAATGAATCAATGTAGATACAGCACTTAGCAGAGAATATGGTACTTTCTGAGTAGATCCTCAGTGAATATGAGCTGCTGCAATGATGATGAATATGATTCTTCATATTATTGTTCTTATTCAG
Seq C2 exon
ATTCATCTGCCTCCAATGGGCCTTACCCCACTCCGAGGCCGGGGACTTCGAAGCCAAGAGAAACTGAGGAAACTTTCCAAACCAGTATATCTCAGATCTCATGATGAAGTTTCCTAATCTAGAGGAAAGTTTATTTCTGCAAATGATGAGCCAACTAGTTATTGAATGTAAACCAGATGGCAAAACACTTCTTGATTAGGGGCAAAAATTCAAATGTCTTCTTAAAACCTCCACAATTGATTCTCCCCCTGTGATGTAAACTTAGATATCCCTAGAGTTTCTCAGCATCTTTCTTCCTGAGTGGATGGCATTATCCCTAGAGGTCATGGACCTTACATCCTCACTGCAGTCACCTTTGGAAACAAGACCGAGGCCTGTAGAAGGAAAGCGGAAGGATGTAAGAGCTGTTCATGGGAATTCCATTCACCACACATGCCAGCTGATGCAAAGAAATTTGCCAGTCACTGGAAGTTACTGTGGCTACTATAAAACTATGTACCACTCTCAGAATATTCTTAGGCTTTTTTTTTTTCAAGTTATAGATTTGCTTAAAGTGAGGTTTTTTGGTGTGTGCTTTTTTGTTGTCTTTTGACCCTTCCAGTTTCCAGACAAACTTGTCTTAAAAAGTGCATCATTGGATTGACCATGGTTTTTCATGAAATTTTATGAGATTTCTGCCTTAACAAAATGCATATATTCCTTATCTTAAAGCCTGTCATTACTTAGGATGCACTTATAGGATCTGAAAAGCTCACTTTAAACTCATACTACATTCGTTACGAGTATTTTACGTTAACATAATTGAAAAGTACAAGGTCCAAGCTGGCTTTCAAATTATGTCTAAACAGAAATGGGACAAATAGACTTGAAAATAGAAGGGATTTATTCCACCCCTGCAAGGGTAGAGTCAGGTGAGAGTCCCTTGGTGAGTCATTTGTACATCAGTGTCATTTCTTCTTAACCTCTGAAGAAGATGGGCATCAGAAATAAAGACAAAGCACTATCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000102897-LYRM1:NM_020424:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.114
Domain overlap (PFAM):
C1:
PF0534710=Complex1_LYR=PD(28.4=61.3)
A:
NA
C2:
NO
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
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)