RnoALTD0016222-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000027623 | LOC680039
Description
hypothetical protein LOC680039 [Source:RGD Symbol;Acc:1596848]
Coordinates
chr14:79281829-79296044:+
Coord C1 exon
chr14:79281829-79282323
Coord A exon
chr14:79282324-79282327
Coord C2 exon
chr14:79295910-79296044
Length
4 bp
Sequences
Splice sites
5' ss Seq
TAGGTATTG
5' ss Score
5.64
3' ss Seq
CTGGTGCAATCTCATTGCAGGAG
3' ss Score
7.99
Exon sequences
Seq C1 exon
GTACTGCCAGAGACTGACGTTGCCTCAATGTGAAATGAAAGTTGAAAATTGCATCTCCTTGTGTGTTGCTATCATGGTGTTGATTCACTGGTCATGCCTGAAGAGGGAAATTGTGCTGTAGAGAGCTGACTGCTGCGCGGTCACTGCCTATCCTCCATGTCCAGCCCCTCTCCTTTCTGCTGGAGTGAAATCCTCTCCGGATACCAACAGAACGTCCACTGTAGAAAATGCTTTGCATTTTAAGGATGTCAGCAACCTAAGTTCATGCGCCCTGTCTGTACAGTTGTTGTGGATGGTTTGCCATCTGAAAGCACCTCAAGTTCTTATCCAGGCCCTGTGTCTGTTTCTGACATGTCGCTGCTTCATGCATTGGGCCCAGTGCAAACCTGGCTGGGACAAGAGCTCGAGAAATGTGGCATTGATGCCATGATTTATTCGAGGTATATCCTCAGTCTTCTGCTGCATGACAGCTATGACTACGACCTGCAGGAACAG
Seq A exon
GTAG
Seq C2 exon
GAGAATGACATCTTGGGCTGGGAGAAAGGAGCTTATAAGAAATGGGGAAGGAGTAAGAAAAAGTGTTCTGATCTAACGCTGGAAGAGATGAAAAAGCAGGCTGCTGTCCAGTGTCTGCGCTCTGCTTCTGATGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027623-9-3,10-3-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.039 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF153761=DUF4603=PU(4.3=70.1),PF144001=Transglut_i_TM=PU(14.1=16.9)
A:
NA
C2:
PF153761=DUF4603=FE(3.5=100),PF144001=Transglut_i_TM=FE(47.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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:
TGACTACGACCTGCAGGAACA
R:
TCCAGCGTTAGATCAGAACACT
Band lengths:
105-109
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]