BtaINT0065560 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006948 | GARNL3
Description
GTPase activating Rap/RanGAP domain-like 3 [Source:HGNC Symbol;Acc:HGNC:25425]
Coordinates
chr11:98122982-98123552:+
Coord C1 exon
chr11:98122982-98123080
Coord A exon
chr11:98123081-98123435
Coord C2 exon
chr11:98123436-98123552
Length
355 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCTA
5' ss Score
2.48
3' ss Seq
CATCTGCTTCATCCCACCAGGGA
3' ss Score
8.75
Exon sequences
Seq C1 exon
ACGACCTCCCATCAGTGCCCGTGTTTGACAAGACTCTGCCCGTGAAGCAGATGCATGTGCTGGAGGCGCTGGACCTTCTGATCCTCAGAGCAGACAAAG
Seq A exon
GTGCTACTCCTCCTCGAGGGATGTTGTCTGGGAGGAAGGGGAGCGTGTAGCCTATGGCCAACACAAGGGTCTCGGGGCTCTGGCTGAATCACCAGTGCCAGGTTTTTCTTCTGGTGCCCAGGGCTCAGGTCCTTGGTAGCCTGTTTGTTCTCTGAGGCAGGGATGGTGAGGGAGAGAAGGGGTGGGCATCCCTGATCACATTGTTAGGTGAAGGCAATGCAGGGCTTCTCCCCAGTTCTGGAACACCTCAAATCCTGATTTCTTGAGTAGTAGTTTTCTACACAGTCCACCCCTTCAGTTCTTCCAGGTCATCTTACTTTTCCATCCATCTCCTCCATCTGCTTCATCCCACCAG
Seq C2 exon
GGAAAGATGCCCGCATCTTTGTCTTCAGGCTGAGCGCTGTGCAGAGGGGCATCGAGGGCAAGCAAGCCGTGAAGGGCAAGTGTGACTGTAGAGAAAACAAGCTCGAGAAAACAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006948:ENSBTAT00000009123:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0078017=CNH=FE(10.8=100)
A:
NA
C2:
PF0078017=CNH=FE(12.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGACCTCCCATCAGTGCC
R:
TTTGTTTTCTCGAGCTTGTTTTCTCT
Band lengths:
214-569
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development