BtaALTD0009114-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000006948 | GARNL3
Description
GTPase activating Rap/RanGAP domain-like 3 [Source:HGNC Symbol;Acc:HGNC:25425]
Coordinates
chr11:98001650-98028516:+
Coord C1 exon
chr11:98001650-98001820
Coord A exon
chr11:98001821-98001824
Coord C2 exon
chr11:98028447-98028516
Length
4 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGT
5' ss Score
8.07
3' ss Seq
ATGAAGCATTTTTGTTCCAGCTC
3' ss Score
4.98
Exon sequences
Seq C1 exon
TACAGCACTGCAGCCTCCAGGCCCCCTGATGGACCCTCTGACGAAAGGGCCCTGCGGGAATCAGATGGCACAGACCCTCATGTGGAAAGCCAAGTCCTCTCTGTCCTTTGGCATCCAGCCCCTGCAGACGTGGCCGGCTAAAGACCCTGAAGTAGAGGCCCAGGTCAACCT
Seq A exon
GTAA
Seq C2 exon
CTCTGTCTCGGAAGACCTAGGCTGTAGACGTGGGGATTTCAGTAGGAAACATTATGGATCTGTGGAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006948-3-1,4-1-2/2
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=0.271 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
CTCTGTCCTTTGGCATCCAGC
R:
CCACGTCTACAGCCTAGGTCT
Band lengths:
106-110
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development