RnoINT0087324 @ rn6
Intron Retention
Gene
ENSRNOG00000022312 | Lrsam1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:RGD Symbol;Acc:1564403]
Coordinates
chr3:11982403-11986939:-
Coord C1 exon
chr3:11986852-11986939
Coord A exon
chr3:11982478-11986851
Coord C2 exon
chr3:11982403-11982477
Length
4374 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
GTGTGCATTGTCTCCCGCAGAGT
3' ss Score
11.07
Exon sequences
Seq C1 exon
CATGGCTGAAATGGACAAGCGGTTCCAGCAGATTCTGTCATGGCAGCAGATGGACCAGAACAAAGCCATCAGCCAGATCCTTCAGGAG
Seq A exon
GTGAGCCCTTGCCCGGGGCCTGACTGCAACCTCCTGTAGGATTCCAGGGATAGCCCTCTGGTCCCTGGCTCTAGAGAAGCAACCTCCCCTCCCCTTGGGGACAACATCCTACCTGAGTATGGACCCCAGCCAAAGGACTTGGTGCCTGGAAGTGACAGTCCCTGCTCAGGGAGCCGGGGCGGGGCCTCTGTCTCCCGTTTCCCACATGCACTGCTGCTCTCTGCAGGGGCGGGGCCTCTGTCTCCCGTTTCCCACATGCACTGCTGCTCTCTGCAGGGGCGGGGCCTCTGCCTCCCGTTTCCCACTCGCACTGCTGCTCTCTGCAGGGGCGGGGCCTCTGTCTCCTGTTTCCCACATGCACTGCTGCTCTCTGCAGGGGCGGGGCCTCTGTCTCCTGTTTCCCACTGCACTGCTGCTCTCTGCAGGGGCGGGGCCTCTGCCTCCTGTTTCCCACTGCACTGCTGCTCTCTGCAGGGGCGGGGCCTCTGTCTCCCGTTTCCCACATGCACTTCTGCTCTCTGCAGGGGCGGGGCCTCTGCCTCCTGTTTCCCACTGCACTGCTGCTCTCTGCAGGGGCGGGGCCTCTGTCTCCCGTTTCCCACATGCACTGCTGCTCTCTGCAGGGGCGGGGCCTCTGCCTCCCGTTTCCCACTGCTGCTCTCTGCAGCTTTCATCTTTGCGGAGCCTTAGCAGGTGCCACGTGGACCAGCAAGGGCCCCACTGCGCTCCCTTAGCCTTTCCCTGAAGCCAGTTCTGTGCTTGTCGTGGCCTTTGCCTTTGGAGTCATCCCATCCCGGCCCTGCTCAGCCGGCTTTCCCTCCTTTCTAGCTCCATCTTCTCCCAGACTAAGAGGATTCAATGTCTGCTGAGGACCCTGTTTCTCAGAGAGGGCACCTGCCTGTGGCTAAGTTCTGGCTGGGGATCTGGGTAGATACGGCATTCGTCATCAGTTCCTCATCTGTGAAATGGGCAGAAGCAGCCATGCCATCTATTCTAGAAATGCAGTGTTCAAGCCAGAGAGATGGCTTGGTGGGTAAAGGGATTCCCTTGCATTCCCAAAGACCCCGGTCCATCCCAATACCACCTGAGGGGTGTGGTAACACACAGCAGTAATCTTACTGTGTGGAGGGTGGATTCTGGAGGACCAGAAATCAGAGTCGTCCTTAAAGTTCAGCTACATAGGGAGACCACCCCTCCATGAGGCTACATGAGACCACCTCACCTCAAAAAATAAATAAGAAAAGTCTGTGTGTTGTAGTGCATACACCCCTTCAATCCCAGCACCAAGGAGGCAAAGACGGGCAGATCTCTGTGAGTTTGGGGCCAACCTAGTCTACAAAACAAGTTCTAAGACAACCAAGGAGACAGAGAGACCCTGCCCTAAAAAGTTAAATGAATAAGTAAAGCGAAGGGAAGAAAAGAGATGGAGTGCACAGCGTGAGAAGCAGACAGAGAGCATGGTGGTTGGCCCTTGGGAAAGGACGGGTCTGACTTACCATGACCGTTAGCACAGGGAGGCCGGATATTCACTCTTTCACCTTCCTGCTTCCTTTCTGCCCTCAGGGCTTTCTCTCATAAATACACATATGTGAAATATGTATACCAATGTATTAATATACATTGTCTATTTATTCATATATGATATATACGTGCCTGTGAGTTTAATATGCATAGGCATAAGTATAATATACACAATGTTATTATATATAAATATGTATTTTAGGCATAGCGTCCACATGTGAGAGAAAGCCATGAGATTCATCTTTCACTTAGCACAGTGATCTCCATTTCCAGCCATCTCCCTGCAGGCAGCATAGTTTAGTTCTTTTTTTATGGCTGCGTGAGCCAGCGCTGTGTGAACACCCAGCTCTTTCACCCAGTGGCCTGTCAGTGTCCGTTCAGTGTAACTGGAGTTTCTCTGTTGATTCAGTTGGTGGTGGTGGTTTCGATGGTCTCTCTCTGTTGGTAAGAGAGACTATTGAGGCCACCCACTACTTTTTTTATCAGGACCTGTCTGTTTACGAAATTAAGTGAACCGGTATTTGGTGCACATGTAATTGTGATACATTCTCGATAGAGTGTCCCCTTATTAGCACTTTGGCAGGGCCTCGTCGGTTTTGACTCATTTTTGGCTTGGGTGTCTACTTTGTCAGGCTCGAATGCTGCTTGCAGTTGATTACAAACACGCGATGTGTCCAGTCCTGTCTTTGCTGAAGGCTGTTTCTTACAGGCAACAGCAGCTGAATCCCATCCATTTTCGTTTAGATGTGGAGTTGGTGAGGCTCGCTGACTCTTTCCCGGGGGGGTTGTTCTTCTCTTTCCCCCTCACTCATAGCAGGGCTTCAGGGGGTCTCCTTTATGTGACCCCCCTGACTGCCATTACTTCGTCTGTTTCTCTCTTGGAGTTTACTTTCCTGATCTCTCGACTCTGTCATTTCTCTTTCTTCTTAAAGATCTATTCATTTTATTTTATGTGTATAAGTGTTCTGCCTGTGTGTGTACCATGTGTGGGCTATGCCCTTAGAGACAAGAAGGTTTTGGATCTCCTGGAACTGGAGTTACAGGTGTTGCTGGCTGGCATGTGGGTGCTGGGAACTGAACCCAGGTCCTCTGCATGAGCAGCCAGTGCTCTTAACCTCTGAACTCTCCTCCAGCACAAGGAGGATTTACTTAAGAACCGGATGCAGTGCTGGCTTCGTGGTCCCAAATTGCTTCAGTCTCTCTGTATCGTGAGGATCCCACACTTTCCTGGCCTCGAGGGCTCTGCCCAGGAGTCGGACGTGATCTCAGTTTGCCTTTGTTACGTGAGCTCACGTTTTCAGTCACTCTATGTTTGTTTCTTTGGGGAGGAGCACACAAGCGTGTGTCATGGAGGTCAGAGGACAACTTGTGGGTGTGAGTTCTCCCTTCCACCATGTGGGCCCCTGGCACCTCTGCCTCCCGAGCCATCTTGCCTGCCTTCATTATGATCTGGATTTTGTTTTGCTTTGTAGTCTCGGCAGTTTAATTGTGTGTGTGTGTTTTCCTGCATGTGTGTCTATGCAGCACATTCATGCACTGCCCATGCAGCCCAGCAGGGGGCTCTAATCCTCTGGAACTGGCATCACAGATGATTGTAAACCACCATGTGGGTGCTGGGAACCAACCCTGGGCCCTCTGGAAGAGCAGCCAATGGTCCTAACCACTGAGCCCTCTCTCCAGCTAAGGTGTCAGTTGGCCACTGCTGAACTTCAACTTCGAAAGTCAGCTTTACTTTCGCTGAAGGGGTCTCATGTGCCCCGGGTTCTTATCTTCGGGTCCTCCGTCTCGTGGAATCTTAAATTTGGTCTCTCACTCCTGCTCCAGAATTTTTGACTTTATGGTCACATATGTTTCTGTTTCAGTTTACTAATTAATTAACTTAGGACGTATATGTATGTGGTGTATTTGTCCACGTGTGCATCCAGGTGACTGGGTGTCTGTCAATTTATTGACATTCCCAAGTCAGACATTTCTGTGGTTTTTGTTTTTGGAAAATCTCTCTTTCCATGCTGAATTTCTCATCCGGTCGGTGGGTTTCCATGCAGACCTGGAAGCAGCCGCTTTCCTTCATCCATTTGCTTGTTCTTATCTTCTATTTGACTGAAAAGGACATTGACTTCTTTTGGGTTAGACTCTGAATTCTTTGCTGGCGACTTTGAATCGTGTTACTCGGGGGTGAGGAGCCTTTGGAGCGGTCGTGTTCCCTTGAGTCTGGAGTACCCTGTGTGTGCCCAGTGACACACACGTCTCTTGGAATGAGCATTAGCTCTGGCTTAATATGAGCCTCCTTAGTGGGCAGACATCTCTCGGGACTCAGTCTCTCGTACTGGGATGGGGGAGGAGGGAAACAGGAGTGGATGCGGCTGTGACGTATCCTTCCCCCACAGAGGACCCAGGACTGGAGGCCCCTCTTTGTCCTTCTGTCCCTGGTGTTTGGGGCTGTCCTCGTCCCACCTGTGGTTTCGGGTGCTCTTCTCCGTCTTCAGAATGCCAGTCACCTGGCTGTTTGCAGTCAGCGTCATGTGGATGTGTCAGATGAGCGTCTGACCTCAGAACCTCCGTTGTTCATCCTCGTTTGTTTAAATTTAACGTAGGAGATCAGAAGTCACTTCTCCAGCTGTGTGTGGCTGGTATCTGCTATAATTCCAGGGCCCAGGAGGTTGAGGGTGCTTTGAATTCAGAACCAACTTGAGCTACCTAGACCCTGCGTTGAAAGGAGGGAGAGAGAACAGTTATTTTCCCGCCCACCCAAGATCCACATTCTAAGGTGTTTTTAGGCAGATGTGGCTCCCACGTGGCTGGCGAGCCAGGGAGGGTGGCCTCTTCTCAGTGTGTGTGCATTGTCTCCCGCAG
Seq C2 exon
AGTGTGATGCAGAAGGCTGCATTCGAGGCTCTCCAGGTAAAGAAAGACCTCACGCATCGGCAGATCAGGAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022312:ENSRNOT00000060186:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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]