BtaINT0122434 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015232 | RAPGEFL1
Description
Rap guanine nucleotide exchange factor (GEF)-like 1 [Source:HGNC Symbol;Acc:HGNC:17428]
Coordinates
chr19:41118119-41118439:+
Coord C1 exon
chr19:41118119-41118216
Coord A exon
chr19:41118217-41118316
Coord C2 exon
chr19:41118317-41118439
Length
100 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
GCCGCTGCCTGCCCCACCAGGTG
3' ss Score
9.17
Exon sequences
Seq C1 exon
AGAAGGTCCTTCTCCAGCCTACTGAAGACTGTGTCTTCACCACACTGGGCATCAACAGCCACCTGTTTGCTTGCACCCGAGACAGCTTTGAGGCCCTG
Seq A exon
GTAAGAACTCCCTCATAAGCCTTGGCTGGTAGCGGAGGCTGAGAGGGGCTGGGGCAGAAATTCACAAGCCTAGCCCCTGTGCCGCTGCCTGCCCCACCAG
Seq C2 exon
GTGCCCCTTCCTGAGGAAATCCAGGTGTCCCCTGGAGACACGGAGATCCATCGCGGGGAGCCTGAGGACGTGGCCAACCACCTTACCGCCTTCCACTGGGAGCTGTTCCGCTGTGTGCACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015232:ENSBTAT00000020265:8
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=0.244
Domain overlap (PFAM):
C1:
PF0078818=RA=PD(24.4=57.6)
A:
NA
C2:
PF0061714=RasGEF=PU(12.5=56.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGTCCTTCTCCAGCCTACTG
R:
CACACAGCGGAACAGCTCC
Band lengths:
212-312
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]