RnoALTD0001685-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000042084 | Acsm2
Description
acyl-CoA synthetase medium-chain family member 2 [Source:RGD Symbol;Acc:708383]
Coordinates
chr1:189330259-189359952:+
Coord C1 exon
chr1:189330259-189339783
Coord A exon
chr1:189339784-189340055
Coord C2 exon
chr1:189359820-189359952
Length
272 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
GCATCATCCAATTCCTGAAGTTC
3' ss Score
1.77
Exon sequences
Seq C1 exon
AGATTTGAAAGTCATTTATACAATGTTACCATAGCAACAAACAACTAGTGAAAATAAGATCTCCCTCTTAGCAAAACTAGCCTTCAATACTTGGCAGCCAACTATGACCTAACAGGATTTGCTAATGCTAACAACTTGTGTTTTCATAGTATTTAGTTTTGTTTGACTTAGCACTTAAATTCATTTTAAAGCTGGGGTGGAGATAGAGGATTTCATGTTGAATTAGTACTATGTTTATCGGAGGCTTCGGGAAATAGTCAATGCTAGAGTACTCCTTCAAGCCAGGTATAGTGCTTTCCATCTGTAGCACAGAAAAAGGACACAGGTAGTGTAACGCAAGGGGCAGGAGCAACAAGCAACAAGCAAGCACTGAGAAAGTACTGAGAAAGCTCTGAGAAAGTACTGAGCAAGCTCTGAGCAAGCACTGAGAAAGCACTGAGAAAGCTCTGAGCAAGCACCAAGAACCAAGCAGCAAGCAAGCAGCAAGAAGTGATACAAAG
Seq A exon
GTGAGCTGTCTGAGCCAAAGTTTCAGAAATAAGTCAAAATAGGTCAAGGTAATTGATGAGGAAATGAGGAAGAGCCAACAGGTTCCATAGGGCAGGGCATGTGGTGTTGCCTTACCTAAAAGGAGGCAGATGGAGCGTTTGTGAAAGTCACTCCCTTTCAGAGCTGAAGGTAATGAGTCTAGTTCTTTTACCGTGAAGGGTACGCTACCCACCTGGACTCCCTTTTTCCTCATCTGTGAAAAGCAAGTGTCACAGTTCCTGCACAGTTTCAG
Seq C2 exon
TTCTCTGCTCAACATTCCCTGCATCCAGGGGCCAAGTTCCACAGCTGTGTTCCCAGAACTGAAAAGGATTGTGCACAGACCCTACAAGCTTCCTCTCCTAGCTATAGTCTACCTGTGTCCTTCACAGTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000042084-24-21,25-21-2/2
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=0.000
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
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:
TGTTTATCGGAGGCTTCGGGA
R:
GGATGCAGGGAATGTTGAGCA
Band lengths:
295-567
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]