BtaALTD0012560-2/3 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000018559 | LYRM1
Description
LYR motif containing 1 [Source:HGNC Symbol;Acc:HGNC:25074]
Coordinates
chr25:18797335-18826300:+
Coord C1 exon
chr25:18797335-18797921
Coord A exon
chr25:18797922-18797959
Coord C2 exon
chr25:18826142-18826300
Length
38 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
CTATTTTGGTGGGTCGGAAGATG
3' ss Score
0.18
Exon sequences
Seq C1 exon
GCCGCCCCGAAGCCCCGCCCCCTCCATCGTCTCCTGCATCATCACTTCCGGTAACCCCGCAGGCCGCCCGCTTCGGCAGGCGGAATAGGAAAGGAGAGAGGAGGGAACGAGTGGCAGTTTGCGTCATGACGTACGCAAAGACGTACGAAGCTGTCCCCAAGTAAGGGCAAAGACTTAGCAACGCGGAGGGAGGGCAAGGAAGAGATGGAGTGGACCATTTTTTTCGCTGGAATAGGGTGGCGAGAGGAGAACGAAAAGGGGAAAAGGGAATTAAGGAAAGGATGAGTTTGGCTATCTTGTTGGGTATACGGCGGAGCGTGATCTAGAGTTTGAAGTTTAACGAAGGGTCGAGCCTACCCTCGACTTGGGACTAATGCTCCCACAGAAGTCCGTCCGGTGGTTTGGTCCGGTCTGGCCTACCAGACCTGCTAGAGAGCTCAGTCCGCCGCCGCTCAGCTGCGCTCCCGGCGCCGCCTCCTCCCAGCCTGCCGGAGGCTGAG
Seq A exon
GTGCTTCTGTGGGTGGGGGAAGGCTGGACTGACGCAGA
Seq C2 exon
ATGACAATGGCAACACGACAAGAAGTTCTTGGCCTCTACCGCAGAATTTTCAGGCTTGCGAAGAAATGGCAGGCTGCATCAGGGCAGATGGAAGACACCATTAAAGAAAAACAGTACATATTAAATGAAGCCAGAACGCTGTTCCAAAAAAACAAAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018559-2-8,3-8,4-8-2/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0534710=Complex1_LYR=PU(68.7=86.8)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
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:
GCCTACCAGACCTGCTAGAGA
R:
GCGGTAGAGGCCAAGAACTTC
Band lengths:
128-166
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development