RnoINT0087338 @ rn6
Intron Retention
Gene
ENSRNOG00000022312 | Lrsam1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:RGD Symbol;Acc:1564403]
Coordinates
chr3:11999002-12001645:-
Coord C1 exon
chr3:12001524-12001645
Coord A exon
chr3:11999093-12001523
Coord C2 exon
chr3:11999002-11999092
Length
2431 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
GGGGTTCCCTGTGTCCACAGACG
3' ss Score
9.2
Exon sequences
Seq C1 exon
ACAACAAGCTAAAGGAGCTTCCGGACACCCTGGGGGAGCTGCGGAGCCTGCGTACCCTCGACATCAGTGAAAATGAGATCCAGAGACTTCCCCAGATGCTGGCTCATGTGCGGACCCTGGAG
Seq A exon
GTGAGGCAGGGGCATTCTCTCCAGTGCTGCTTGCTGGAGTTGCCCTCTCTCCCTGAGTGCCTGGTCTCAGAGACTCATGTGGAGCTAATGGAGAGACTGCCATGTGGACGCTTGTCATGTTGTGACTTTGTTTCAGTCATGGAGGTGGGGGGGCTTAAGTGAAGGAGGGAGGATGAATCCAGAAGTGTCCCACCCTGTGGCCTTCGAGCCAGACGTTAGAGAGGAGTGAGATTTGGGACATAGCCGTGGAAATGGGCGCATCCTGTGGAGCAAGCAGGACAAGAGAGGCAGGGAACATGTGGAGTTGTGGGCCTCAGTCTGACAGGGTAGACACTGCATCGCAGCAGAACAACGGCAGGGCAGGTAGGGTGAGTGTATCCTGGGACTCAGTATGAGTCACCTCAGGGTGACACAACTAAGCTTCCCACCGCAGGCGGCTCACAGAAAGGAACTCTATGTCCTCACAATCCGGATGAGGCTCCAGATCCCAGTGTCAACAGGGTTGGCTCCTCCTGGAGCCCCTTTGCATGTGGGCTGTGTCCATCCTCTGGCTCTGCTTGTCTGTGTCAAGTCTCCTCTTTAATCACCAGTCTGATTAGGTTAGGGTGCAGCCTGGCTCTAAATGAGGTGACGTTCTGGAGGGCTTAGGACTTCAGTGTATAAAGCAGGCATGCAGCTCAGCCCACCACAGGGTGCACTAGGTGGCGCACTCGGGGACAGCTCTCAGTCATGACACAGAGCCATGCTGCTCTTCGGGCTCTTTTGTGTGTTTGTTCAGACAAAGTCTCATGTAGCCCAGGCTGGCCTTGAATCTACTGTGTAGCTGAGGATAGCCTTGAACTTTTGATCCTCTTGCCTCCACCTCCAGAGTGCTGAGATTACAGATGTGCACCAATGCAGATGTGCACCAACCCACTCACTTTGTGTGGTGCTAGGGATCAAACTGAGGGCTTTGTGTATGCTAGGCAAGTACTTTCTGCCAACTGAGCCATCCCTCACCCCCACCCACTCAGCACTGTGGGAACCTGGGCCTGTGTTAGCTCCTTGAACCCTCCCAGAACCCCTGTGAGACACATCCTGTTAGACTATGCCAATGAAGAAACTAGGGTACAAACGGTTTACTGGACTTCTCAGAGGCCACACAAGCTGGTCATAGATGGTTCTGAACAACCCTGTGGCTGTCACCTCTGCAAAGCTTAGTATTTGTCACAGTGGTAACAACCTGGCCGAGCATCCCAGTCCCCGCTCCCCCTGCTTTTGTGAATCACCCCTGTCAAGCCAGACTGAGGAGCAGCAGTGTCTGGGGAAGTGGCAGGTGAGCAGGGACAGCGCATCTGTGTCTGGTGCCCATCGAAAGGTGATGAAGCTTGGTGTACTCAGTCTTCCTCTGTCTCCCTGGAAAACATTCTATGCCGATGGGACTTTCTCCTGACTGTGGAGCCCAATTCAGTGGCCGTTAGCCATATACAACTCTTGAGCATTTGAAATGTGCTTGATTGGACCAAGGAACTAAATGGTGGTATTGAGTCTTTACCAAGTCTTAGGTAAATAGTCGCATGTGCTTTGCAGTTACCGTGTGTGTGCACTGCTCAGAGCACGTCCCTGGTCCTGAGGCTGTGCTGAGACACTGAGAGTCCTAGGGGACTGACGATGTGGCTCACATAGCCGAAGTGACCCTAACTAATTAAAACTGAAATGAGGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTACCAAGCACAAGGCCCTGGGTTCAGTCCTCAGCTCCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACTGAAATGAGGCCTGCTTGTGACGGTGCATGCACCCCTGTAATCACGACACTTGGGAAGCAGAGGCAGAAGGACCACAAGTTCAATGCAGTCTGAACCATGGAACAAGATCTTGTCTCAAGAAAAAAAAAATGGTCTGGGGCAGTGACTCAGTGGGGAGAGTGTTCGAAAAGGACCTGGATTTGGTCCCTAGAGCTGGTGCCGTAAAAGCCCAGTACCCTTGATCCCAGCCGTGGGGAGGCAGAGACAGGTGGGTCCCTGGGCCTCACTAGCTGACTAAGCAAGTTCCAGACCAGTGACAAAAAGCAGAGGATGGTTCCTAGTGGCCAGCACTCGGTATCCCCTGGCCCTCCGCACATGCACACACAACTCAAGAAGTATAAGCAGCCACATGTGACCTCCAGCCACCACCCTGGGCAGTGTGGCCCAGAGTCCACACCCACAGGCAGCTACCACACTTTGCTAACGATAACTAGTGTCACCTAGGCGGGATTACTGCTCTTTAAACTTGGCTTCTCTGCTCCCTGGGTGCTCCCAGTAGGCAGGGGAGAGAGTAAGCACCCAAGTTAATAACAAAACCAGGTGGCTTTCAACTACGCTGTAAAGAAGGGGTTCCCTGTGTCCACAG
Seq C2 exon
ACGCTGAGCCTCGATGCCTTGTCAATGGTCTACCCCCCACCAGAGGTGTGTGGCGCTGGCACTGCGGCCGTGCAGCAGTTCCTCTGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022312:ENSRNOT00000060186:8
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:
PF127992=LRR_4=PD(79.5=85.4),PF153711=DUF4599=PU(43.4=87.8)
A:
NA
C2:
PF153711=DUF4599=FE(36.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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]