RnoINT0087339 @ rn6
Intron Retention
Gene
ENSRNOG00000022312 | Lrsam1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:RGD Symbol;Acc:1564403]
Coordinates
chr3:11995869-11999092:-
Coord C1 exon
chr3:11999002-11999092
Coord A exon
chr3:11996000-11999001
Coord C2 exon
chr3:11995869-11995999
Length
3002 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
TAGTGCCTCTTTCCCCACAGAGT
3' ss Score
9.42
Exon sequences
Seq C1 exon
ACGCTGAGCCTCGATGCCTTGTCAATGGTCTACCCCCCACCAGAGGTGTGTGGCGCTGGCACTGCGGCCGTGCAGCAGTTCCTCTGCAAAG
Seq A exon
GTAAAGGCAGGCCACCCCGCTGGCCATCACCCACCACCAGGTTGGGGACAGCAAAGACTAGCTGGTCAGACTGCCTGCCTGGAGGTCAGGGTCCCGTGAGGGAGACAGGTCATGAACAATCACAGGGAAGTGAGCACCCAGGCTGAGCTTAGAGAGCAGAGTCGGGCATTGGCTTAGGTAAGGGCCAGGGAAGGCCTGTGAGAGAAACAGCTGACACCTGAGGGCCAGGAAAAGACTGTGCTCCTAGCACCGGAGGCCAGTGTTGGGGGCCTAGAGCAAGTAGGAGATCCTAAGGGATGATGGAGAGAAGGCCAGGGTAGCTGGGGTGCTGGAGGCAGGCAAAACTGAGGAGAGGGGGCAGAGCCCAGCAGGAGAGCTGGTTTCACAGAGATCACATCATAAAGAGTCATCATAAAGAGAAAAAGTGAAGAGCTGTGAGCTGGGCAGGCCCCTGGGGAGACCCCAGTGGCCTGAGCTTGGAGAAAGAATGAGGTTAAGCATCACTAAGGACTAAAACCTAGGGCCCCCATTGGTCTAGGACCATGAGGAAGCAGCCTCAGCTGTTGTCATCTATGGCTCCTGTCACCTGGGACATTATCAGGGCATAGCCTCTGGTCGTCTGCATTATTCTTGGTGCAAAGTGCAGGGAGGGAAGATCTTTTCTAAGAGCAAAAGGTGCCATACCTTGTGGCCTGGGACTGTAGGCAGTCCATAGAGCACAGAGCACTCACCTGGTATGTAAGGCCTGGATTCCATCTCCTGAAGAAAGGCCCACACCTGAAACCTTCCTGAATAGGAGACAGCGCCATCAGTAAGGCCAGTGAGCCTCGAGTTAACTAAACAAAGTTCTCTTCAACAGTACCACCCAGGGAACAGAGGGTCTGTCCTGTCCAATGGGACTTATTTTTATTTGTATTCTGACTTATTATTATACCAACTTATTGTATTGGCCTTGAACTTAGAATCCTCCTACTTCAGCCTCCTGAGTGCTGGGGTTGTAGTTTTGGTCCTTCAAAAGCAAATTCCCCGCAGGACTGAAGAGACAAGCATTGACTGCTTTTCTAGAGGACCTCGGTTCAATTCCCAGCACTGACCTGGCAGCTCAAGTTCTGGGAGATCCAGTGCCCTCTTCTGGCCTCTAAAGGCACCAGCCATGCGTACACACGGACACAGAAAACACTAAGACGTGTAAAATAGATAATACTAAAATTAAAACCTAAACAGCCCCCTGCTGGCCTACCTCCTCCAGCCAGGCTCCAATGTCTACTCAATAATTTCATTAAGAGTCCATGGAGAGGGAGCTGGAGAGATGGCTCAGCGGTTAAGAACACTGACTGCTCTTCCAGAGGTCCTGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCATCTCTAATGGAATCTGATGCCCTCTTCTGGCACAGCTGAAGACAACTACAGTGTACTCATCTATGATAAATAAATAAATCTTTAAAAAAAAAAAAAAAAAGAGTCCATGGAGAACTGGGTGGTGGTGTCCACACCTTTAATCCCAGCACTCGGAGGCAGAGGCAGGCAGATCTCTGAGTTTGAGGCCAGCCTGGTCTACAGAGTGAGTTCCAATATAGCTAGGGCTGCACAGAGAAGCCCTGTCTTAAAAAGACAAGGCAAAATGATCTGCAGTTTGAGGTCAGGCTATGGCACCTGACAGTCCTGTCTCAGGAGAGACTGCAGAAGCAGCTTAGCTGCTGCGTGCTGGCTGCTGTACGTGAAGCTCTGAGTTCACATCCCAGTACTGCGTCATGGGTGTAGCAGCCCAGATCTGTAATCCTAGCGCTCCAGAGGTGGCAGCAGGTACACAGTCCAGGCCAGCCCGAGACATTTGAGACCCAATTTCCAAGTAAATAATAAACTATTGTGGGGTGCGAGGACGAGTACTTGGAAAGACAGGGACATCAGAGTCCGTCCTGGGCCAGCCTGGGTTATGGAGGGAGTTCAGGGTTAGCCTGAGCTATGTAGCAAGACCCTGTCTCCTTCTCCCTCTCTGTATGTTGTCTGTATCTGTTCAAGCTGAGTGTTCAGGCCTTCAGCTCAGTACTCTGACTAGCTGTTTGTCCTACAGAAAGAGAAGCCATATTGTCTACACCTGCTTACAGCCACACTTCCCAATAGTGGTGCCCAGCGGTAGGACGGTGAACTACTTCATACTCACATGTGAACACCACACTGCCCTGAGCAGAGCAGACTGTTTACAGCATGCTACAAGAGTCTCTGAGGGGGAGTAAAGGCAGAGAAGCAGGCACTGGCAAGTGTTTGTGCCAGGCAGCCCCTGCACTGAGCCCACACCGCCCCTGCTCGTAAGGGTGTGTTCGCTTTTAAATGTTCTTCCAGGTATAGCAGAGCAGTTGTCTAGGGTACACAAAGCTCTGGCTTGAGTTCCTAGCTGCTAAAATAAAGGAAAAAATCTTTTCTGGGTAGAGTAGTATATGCCTATAATATTTACACTCCCGGGGAAACAGATGCAGGAAGATTGCGAATTTGAGGCCAGCCCGGGCTATCTACTGAGGGTCAATACCAAAGTAATGTTTCAAGATCCTCTAACGTTTATGTAAGCAATAGACATACAAATAAAGGAGTAGATATTCCCAACTACAGAGCTTAAATATAGATGATGGCATATACTGCCCCGGGTGGGGGGCGGGGGTAAACAAAGGCATCCCAGCCCTTTTTCTGTTTTTCACTTTCAGACAGGGTTTTGCTGTTACTAAGCTGGCCTTGAACTTGCTTTGTAGCCCTCGAAGGCTTAGAACTTGCCGTCATTCTGGTTTCTGAGTAGCTGGGATTACAAGCCTATGTCACCAGGCCTGACACCAAGCTGTAATCATGAGACAGTAGCGCAGCCCAGCTCAGGGAGATGAGAATGGACGGAGTCAGCAAAGGTGGCTACAGTTGGGGAAGGTGAGGATGGCAGGAGCCTGCAGCCAGGGTCTCCTGGCCAGCTAGTGCCTCTTTCCCCACAG
Seq C2 exon
AGTCAGGCCTGGACTATTACCCACCTTCTCAGTACCTGCTGCCAGTCCTGGAGCAAGATGGAGCCGAGAACTCCCAGGACAGCCCTGATGGACCCACACGCAGATTCTCCAGGGAGGAGGCTGAATGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022312:ENSRNOT00000060186:9
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=0.636
Domain overlap (PFAM):
C1:
PF153711=DUF4599=FE(36.1=100)
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]