BtaINT0065567 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006948 | GARNL3
Description
GTPase activating Rap/RanGAP domain-like 3 [Source:HGNC Symbol;Acc:HGNC:25425]
Coordinates
chr11:98152993-98154364:+
Coord C1 exon
chr11:98152993-98153131
Coord A exon
chr11:98153132-98154148
Coord C2 exon
chr11:98154149-98154364
Length
1017 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAAG
5' ss Score
5.73
3' ss Seq
TTTTTGAACACTTATTTCAGGTG
3' ss Score
7.22
Exon sequences
Seq C1 exon
TCGGATATCTACTTCACAGCAACTGCATCAGCGAACGAGGTCTCATCCGGAGGCAGCTCCAAGGGGGCCAGTGCCCACAATTCTCCTCAGACACCCCCAAGCCGAGATACTCCAGTGTTTCCTTCTTCCCTGGGGGAAG
Seq A exon
GTGAAGTCTAGTTTTTACTGTCTTATGATAGACATTTTTGATCCGTTCTGATTTCTCTGAAAGGTGAAAGTGTTAGTAGCTTAGTCATGTCCAACTCTTTGCAACCCCATAGGCCATAGCCTGCCAGGCTTCTCTGTCCATGGAATTCTCCAAGCAAGAATATTGGAGTGGGTTGCCATTCCTGTCTTCAGGGAATCTTCCTGACCCAGGGATTGAACCCAAGTCTCCTACATTGCAGGCAGATTCTTTGCTGTCTGAGCCACCAGGGAAGCCCCTGTAGTTCATTGTCAAATACTGACATGTGATTACTGTTGAAGGAAACAAACAGTGATTACTGTTTGAAGCCACAAAAAAACTTGCAGTGTGGTTGCATTCTTAAGAAACCTTGTGATAATCCCCACCCCCAAACAATTCCCATTAGGAAAACACTTGTTTCAAAGGGGAGAAGGAAGTTGAGGGTTAGAGAGACTGCAGTTGGCCCCAGCAAGTTATCCTCCCTTCAGGAATGTTAAGGATATAATAGAATTTCATAGCTAAAAGGATATCATCATAAAACCCACACATTACTCAGCACCCAGCTTTCACTCCGTCTGGCTTCGCCCTTGAACCCCACAAACCTTTGCTGTGGTTACTGCCTCACGCTTTTCCTAACTTCTCACCACATGAGTCGTCCTTATGGCTCGCTGCCAGGAGAGCTCAGAGCTCCCGAGCAGGACAGCTGTGCCTTTCTTGCCACCTCCTTTCTCCTGCCCACGCATAACCAGGAGTGGGTGTGTTTTGTCCCGTTCACCCATGAACAGGATGCCGTTAGAGGACAGAGCCAGCGAGTGCCACCACTTTATTGCCCCTAATGAAACTTGGCGGGGCGGGGGCGGGGGGGGGGGGGGGCGTCAGCCTGTGACATAAATTCTTCTTTCATGCTAATGCTAATTATGTTGAGGAACCAGGAAATATTCTCTCATGAATAACATGAGCTCTTCTTAAAGTCCTAATGTTCTTTTTGAACACTTATTTCAG
Seq C2 exon
GTGAAATTCAGTCCAAAAATCTGTACAAGATTCCACTCAGAAACCTGGTGGGCAGAAGCATCGAGCGGCCTCTGAAATCGCCCTTAGTCTCCAAGGTCATCACCCCACCCACCTCCATCGGCATTGGCATCGCGGCCATTCCTGTCACTCACTCCTTGTCCCTGTCCCGCATGGAGATCAAAGAAATAGCAAGCAGGACCCGCAGGGAGCTGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006948:ENSBTAT00000009123:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.617 A=NA C2=0.329
Domain overlap (PFAM):
C1:
PF0078017=CNH=PD(0.1=0.0)
A:
NA
C2:
NO
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:
TCGGATATCTACTTCACAGCAACTG
R:
GCGGGTCCTGCTTGCTATTTC
Band lengths:
342-1359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development