BtaINT0122023 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004194 | RALGDS
Description
Bos taurus ral guanine nucleotide dissociation stimulator (RALGDS), mRNA. [Source:RefSeq mRNA;Acc:NM_001101978]
Coordinates
chr11:103134237-103134768:-
Coord C1 exon
chr11:103134553-103134768
Coord A exon
chr11:103134341-103134552
Coord C2 exon
chr11:103134237-103134340
Length
212 bp
Sequences
Splice sites
5' ss Seq
AGGGTATGC
5' ss Score
7.47
3' ss Seq
CCTGTCCCCTTGCCCCGCAGGAG
3' ss Score
11.87
Exon sequences
Seq C1 exon
GAGCTGTTCAAGAAAGTGGTCCCCTACCACTGCCTGGGCTCCATCTGGTCCCAGCGGGACAAGAAGGGCAAGGAGCACCTGGCCCCCACCGTGCGTGCCACCGTCGCCCAGTTCAACAGCGTGGCCAACTGCGTCATCACCACCTGCCTCGGGGACCGGAGCGTGTCAGCCCGCCACAGGGCCAGGGTGGTGGAGCACTGGATCGAGGTGGCCAGG
Seq A exon
GTATGCACACCCTCCAGGGCCCGGGGACCCACCCCTTTTCACCCCGGGATTGAGTTCAGACCTTCCCCCTGGAGGGGGTGCGTTACTCACGGGGCCCCAGGAGCGCCTCCCAGGGCGTCAGTCTCTTCCAGGAGGGAGCTCCCCTCCAAGAGAGACCAAAGCTGGAGCAGGCAAGCTGGGTCCCCCTCATGGCCTGTCCCCTTGCCCCGCAG
Seq C2 exon
GAGTGCCGGGTCCTCAAGAACTTCTCCTCCCTCTACGCCATCCTCTCTGCCCTGCAGAGCAACTCCATCCACCGGCTGAAGAAGACGTGGGAAGAGGTCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004194:ENSBTAT00000032653:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.014 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=FE(33.0=100)
A:
NA
C2:
PF0061714=RasGEF=FE(15.8=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:
AGCTGTTCAAGAAAGTGGTCCC
R:
GTCTTCTTCAGCCGGTGGATG
Band lengths:
301-513
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development