BtaALTA0029324-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000020975 | SYNGAP1
Description
synaptic Ras GTPase activating protein 1 [Source:HGNC Symbol;Acc:HGNC:11497]
Coordinates
chr23:7559850-7561337:+
Coord C1 exon
chr23:7559850-7560023
Coord A exon
chr23:7561126-7561131
Coord C2 exon
chr23:7561132-7561337
Length
6 bp
Sequences
Splice sites
5' ss Seq
AGGGTACGG
5' ss Score
7.86
3' ss Seq
GTCGTGTGCCCGGCGGGCAGGTG
3' ss Score
5.41
Exon sequences
Seq C1 exon
CATTCCCAGACGCCGTCCACGCTGAACCCCACGATGCCGGCCTCCGAGCGGACGGTGGCCTGGGTCTCCAACATGCCTCACCTGTCGGCTGACATTGAGAGTGCCCACATCGAGCGGGAAGAGTACAAACTCAAGGAGTATTCCAAGTCTATGGACGAGAGCCGACTGGACAGG
Seq A exon
GTGAAG
Seq C2 exon
GAGTATGAGGAGGAGATCCACTCGCTGAAGGAGCGGCTGCACATGTCCAACCGGAAGCTGGAGGAGTATGAGCGGAGATTGCTGTCCCAGGAAGAGCAGACCAGCAAAATCCTGATGCAGTATCAGGCCCGGCTGGAGCAGAGCGAGAAGAGGCTACGGCAGCAGCAGGTGGAGAAGGACTCCCAGATCAAGAGTATCATCGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020975-34-25,34-24-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.948 A=NA C2=0.638
Domain overlap (PFAM):
C1:
PF120043=DUF3498=FE(9.5=100)
A:
NA
C2:
PF120043=DUF3498=FE(11.7=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTATGGACGAGAGCCGACTG
R:
TCATACTCCTCCAGCTTCCGG
Band lengths:
98-104
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development