RnoALTD0017185-3/3 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000024530 | Lyrm1
Description
LYR motif containing 1 [Source:RGD Symbol;Acc:1563498]
Coordinates
chr1:189665802-189685842:+
Coord C1 exon
chr1:189665802-189666395
Coord A exon
chr1:189666396-189666803
Coord C2 exon
chr1:189684950-189685842
Length
408 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGT
5' ss Score
8.07
3' ss Seq
ATGTCATTATTCCCACTCAGATC
3' ss Score
6.95
Exon sequences
Seq C1 exon
GCCCCCTCCATTGCCTCCTGCATCATCACTTCCGGTAACCCCGCCGGCCGGTGGCTCAAGGAGGGAGAGAATGGGAGAGGGGCGGGGACAGGAACGAGGAAGGTGACGCCACGACGTACGCGGGGACGTCCGAAGCCGTCTCCAAGTAAGGGCAAGGCGGGGACGGGTGGAGGGTGGGCTAGGACTGGGCCAGGCCATCTTCTGACTAGAAATGGGGGAAGGAGTTAAAGAGAGGGTAAAACGGAAAGCTGGAGGAGAGGGAGGTTAGCTCAGTTGTTGAGTGCGGCGGGGAGTCGGCTAAATCTGAAAGTTTCAGGAGGTTTGAGACGACCTCTGACCTGGGCCTCATGCTGCCACAGCTGTCCGCCCGGTGGTTTGGCCCGGCCTAGCCTGCGGGACCTGCTCGATAGAGCCCGGTGTGGCGAAGGCTCGGCAGAGCTCCTGGCACCGCCTCTTCCCAGCCGACTCCTGTGGGTGGGGGAAGGCAGGAGTGACGCTGA
Seq A exon
GTGAGTGTAAGGATGGAGAAGCCGGCTCCGGTCGCGGGGGACTGGGGAAAGGGGTTGGCTTCCCTGGGGCTGGGATGAGAAGCTGGTGTGGGGTTGCTAGGAGACGCGCCTGTGTGACCCCAGCCCCTCGAGGGCAGCTTGGTGTCATCGCCACTGGCCTCGGGAGAACTGCCTAAGGGAACTGGCACGTGGGCAAGATCCTGCTCGGGACCCTTCAGACTTTCGAATGGAAATGGAAAGCGACAGGGGCAGTTCTAGGAGGCTTATCGAGGTGCCTGCCTTGAGAAAGGCCACCCAAAGGAGCCCGGATGTAGGAATCAGACTTCAAGGGATGATGGCTAGTTTGATTACCAAGATGAGCAAATGACAAAATAAAGGAAGCCTTGTTCCTGAACTTTTCATTAATAA
Seq C2 exon
ATCCATCTACCCCCAATGGGTCTCACCCCACGACGAGGCCGGGGACTTCAAACCCAGGAGAAACTAAGAAAATTTTCCAAACCACTGTATCTGAAGTCTCATGATGAAGTTTCCTAACAAAGAAGACACTTTACTTTTTAGAATGGTGAGCCAACTCGGTTTTGAATATAAACAAGGCAATATACCCTCCTTGATTAGAAGCAAAATACTTTTCAGACCTCCAAAATTGGTCTTCACCTATGACATGTGGCTGCAGGCATCCCTAGGGTTTTTCGGGGTCTTGCTGCTGCTTGAGCTGATGGACTTCACATCTTCCCTGATGTCATCCTTGGGAGCTGTCTGAGGCCTGTGGGGAAGACTGAAGGCAATTCCTGGGCGGCCTTTCAGCACACATCTGATGCAGAGGGATTAGCTAGTTGCCGCAAGTTCACATGGCTCCAAAACTGCTCTGCTCCCAAAATACTTTATAGAGTTTTTTTCCACAAGTTATTTTCATTTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000024530-6-10,7-10,9-10-3/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.395
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGAGACGACCTCTGACCTGG
R:
TCAAAACCGAGTTGGCTCACC
Band lengths:
344-752
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]