RnoINT0087942 @ rn6
Intron Retention
Gene
ENSRNOG00000024530 | Lyrm1
Description
LYR motif containing 1 [Source:RGD Symbol;Acc:1563498]
Coordinates
chr1:189683220-189685842:+
Coord C1 exon
chr1:189683220-189683312
Coord A exon
chr1:189683313-189684949
Coord C2 exon
chr1:189684950-189685842
Length
1637 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
3' ss Seq
ATGTCATTATTCCCACTCAGATC
3' ss Score
6.95
Exon sequences
Seq C1 exon
CTCACAGACCCAGACTTAATTAAACAGTGTATAGACGAATGTACAGCCAGGATTGAGATTGGACTGCATTACCAGATTCCTTATCCCAGACCG
Seq A exon
GTAAGTGTGGGCACTTACCCTTGTCAATGCAGGTCTTTCTGAGGATATGTACCATGAGGGCTAATCCTTACTGAGGAGCAAGAGCCACAGTAGGAAGCACGTTGGAAGTAAGCTCTCCTTGCATGCCACCACCCCTTCCCAGTAAGAAACTATGTCCACTGATGCAGTGCCTAGTCTCTTCCGGTACAGCTTCCCACAAGCTGGAAGGGGAACTAGTTCCTCTGTGGTCCTTCACCCATTTTTATAGAAATGCTTTTATTTTCTTTAGTATAAAAAGGAAAGCTTTTTAGTTAAAAGTTCTTACCTTTTGGAAGAAGCCAATATAATTTTAAAATGACCAGTTTTCAACTCTTTGATGTAAAAAAGCAGTTATTTTGATACTTTATCAGTTTGATTTAATACCTGGTAATATTAGTTTTCCACACATGTACACACACACACGTTCTCTCATACATGGAATTCTAGTTATATTGTTTTTATTACCTTCTGATTTTATTTCATCTCTTCTGAGCTTCTTTGTATACAGTTCTACCTCAATTCTAAATGTTTGCATTGTATGATATTATAAGACTGTGCTGTCTTTGTACAAGTTAGGGTCCCTCAGAGAAATAGAACCAGGAAGAAGGAGATCAGAAGATCTGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGGTAGGTGGATAGATGCATAGAGATAGATCGCATAGTTGTGGAGGCTAAAGACCCAGGAGAAAGCTAATGACATAATTCAGTCAGAGCCAGAAGGCCTAAGAATCAAGGGGGCTGATGATAGAAATCTAGAGCGGAGGCAGAGAAAAGGAGATGTCTCAGCTCAAATAAGGTGAGCAAGAAGCAAAAGAAGTGGATTCATTCTCTGTCCTTTTTCAAGCCCACTAGGTTGGAGGATGGCCGTCCACATTGGTGAGAGCAGTCTGTTGAATCTGCTAATTCATACACTGTTCTTATCTCTAAATACCCCCACACATACACCTAGAAATGATTCTTAATGAAAGTCAATCAGATTTGCTCACAAAATTAGCCATGAGAGCCATAGCATAAGCATCTTTCTACCTCAGTAGGCATCTGACTTTGCCCATCATGCACTAACCAACTTTGCACTCACGCAACTTCTCCTTTTCCTTCTTTGGGTGCCCATTTTGCTGAATCAATCTGGTAGTTCTTTTCCTGTGTCTAGGCACAGTGCAAGAGATGGGTACAAGCTCTAAACCAGATTCTGGCTTCAGATTCCACCAGTTAGTGCATGGTTTTGAACAGGCCAGTATTTAGTTTCTCTGAGCCTTCTTGGGGGGAGGGCAGTAATGGGGGGAGGATGGGGAGGGGAACACCTATATAGAAGGGGAGGGAGAGGGGTTAGGAGGATGTTGGCCTGGAAACCGGGAAAGGGAATAACAATTGAAATGTAAATAAGAAATACCCAATTTAATAAAGATGGAGAAAAAAATATTTAAAAATTGCTTAGGTGGTTCTCATAAGGATAGATCAATGAATGCAGATATATAAACATTAGTGAGTCTGTGGTAGATTTAGCATTTCAAAACAGGAAGTCCTCGGTGAATATAAGCTACACTAATGATTAATGATTCTTCATGTCATTATTCCCACTCAG
Seq C2 exon
ATCCATCTACCCCCAATGGGTCTCACCCCACGACGAGGCCGGGGACTTCAAACCCAGGAGAAACTAAGAAAATTTTCCAAACCACTGTATCTGAAGTCTCATGATGAAGTTTCCTAACAAAGAAGACACTTTACTTTTTAGAATGGTGAGCCAACTCGGTTTTGAATATAAACAAGGCAATATACCCTCCTTGATTAGAAGCAAAATACTTTTCAGACCTCCAAAATTGGTCTTCACCTATGACATGTGGCTGCAGGCATCCCTAGGGTTTTTCGGGGTCTTGCTGCTGCTTGAGCTGATGGACTTCACATCTTCCCTGATGTCATCCTTGGGAGCTGTCTGAGGCCTGTGGGGAAGACTGAAGGCAATTCCTGGGCGGCCTTTCAGCACACATCTGATGCAGAGGGATTAGCTAGTTGCCGCAAGTTCACATGGCTCCAAAACTGCTCTGCTCCCAAAATACTTTATAGAGTTTTTTTCCACAAGTTATTTTCATTTGATTAAAACTGGTTTCTGTGTGGGCTTTTTCTGTGATCTCCTGACTCTTGTAATTTCCAAATTTATCCCTTTATAAAGGGCAGCTTTGGATTGATCATGCTTCTTTGTTGTTTTGTTGGATTTTGTGTGTGTGGAGGGGATTGTTTTGAGACAGGGATTTCCTATGTAGCACTTGCTGGCTTAGAACTCTCTATGTAGACTAGACCTTGTGTTGACCTCCTGCTTCAGCTTCTCAAGTACTAAAATTATAGACACGAGTCACTAAACTGAACTGATCATGTGATCTTTTTAATGGAAATATGATATAACACCCCTCTCCCTGATGATAAATGAAAGTACATGCCTTAATTAAACATGTGTTTATTTTAAAATAAACTGTGATTACTTAAGATGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000024530:ENSRNOT00000033673:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.395
Domain overlap (PFAM):
C1:
PF0534710=Complex1_LYR=PD(28.4=61.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGATTCCTTATCCCAGACCG
R:
GCTCCCAAGGATGACATCAGG
Band lengths:
358-1995
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]