DreEX0036190 @ danRer10
Exon Skipping
Gene
ENSDARG00000027828 | grin1a
Description
glutamate receptor, ionotropic, N-methyl D-aspartate 1a [Source:ZFIN;Acc:ZDB-GENE-051202-1]
Coordinates
chr21:11401819-11408696:+
Coord C1 exon
chr21:11401819-11401964
Coord A exon
chr21:11404348-11404374
Coord C2 exon
chr21:11408462-11408696
Length
27 bp
Sequences
Splice sites
3' ss Seq
TTTTTTCCTCCCCAATGCAGCCC
3' ss Score
9.5
5' ss Seq
GATGTAAGA
5' ss Score
5.46
Exon sequences
Seq C1 exon
GGGTCTTCATGCTAGTTGCTGGAGGCATTGCAGCAGGAATATTCCTCATCTTTATCGAGATTGCATATAAGCGCCATAAAGACGCCCGCAGGAAGCAGATGCAGCTAGCCTTTGCGGCCGTCAATGTCTGGAGGAAGAACCTACAG
Seq A exon
CCCTCTTCCTCTGTAGAGACTCAGGAT
Seq C2 exon
CAATACCCACCCACAGACATTACGGGCCAGCTCAACTTGTCGGACCCGTCTGTCAGCACGGTGGTGTGAGGGAGATAAAGAAGGAGAGTTTAACATAGAGACACGTTCATTCTTTAGAGAACAACAAGAGGAGCGATGTAGTACCTCTTCTCTAGGTTTTGCACAATGGATCCATCATGGACGAGAACTATTGAGCCATTTCACATTTACCAATGGGATCTGTTGGAAATTGATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000027828_MULTIEX2-2/3=C1-C2
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.008 A=1.000 C2=0.338
Domain overlap (PFAM):
C1:
PF0006021=Lig_chan=PD(3.4=18.4),PF105624=CaM_bdg_C0=WD(100=59.2)
A:
NO
C2:
NO
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATAAGCGCCATAAAGACGCCC
R:
AAGTTGAGCTGGCCCGTAATG
Band lengths:
118-145
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]