BtaINT0122020 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004194 | RALGDS
Description
Bos taurus ral guanine nucleotide dissociation stimulator (RALGDS), mRNA. [Source:RefSeq mRNA;Acc:NM_001101978]
Coordinates
chr11:103136336-103137272:-
Coord C1 exon
chr11:103137213-103137272
Coord A exon
chr11:103136530-103137212
Coord C2 exon
chr11:103136336-103136529
Length
683 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
GCCCGCCTGCCCACCCCCAGTGC
3' ss Score
7.59
Exon sequences
Seq C1 exon
ATATGGGTGCATCCTTCCCTACTCCAGCGAGGACGGCGGACCCCAGGACCAACTCAAAAA
Seq A exon
GTGAGTGTACCTCGGGTCTGGTGGGAGGGTCTCCCGTCTACAGGGTGGGATCCGGCGGGGGCTCAGGCTGGGGAGACCTGGGCAGAACCCTGGCTCCTCTACATCTTGTGATTCCTGCTGGAGGGCCGAGGTCTGGGCGCTTCTGCAGGACGAAAGGGATCGGAGGGCAGTGGCTGGGGTCCCAGGTCCAGGGAGCAGGGGGGAGGCAGGGGGCTCAGAGCTGGGTCCTGAGACCAAGTTCAGGTGTAGGAGGCTCATGATGGCCGGGCAGGGGGCTCTGCTTGTCCCCTCCTCCCTCCCATGTTTATGCAGCGCCTACTGTGTGCAGTGCAGCCAGACCAAACCAATGAACAGAGCAGGCGCGGCCCTGCCTGCCCCCCTGCAGTTCCCTTTGGTTGCGGGGAGGTCAGAGTGGGGGTGGGGGGTCCAAGACTGGGGTGCGGGGCCCAGAGTGGGGCTGGGGGGTGGACAGGAGTGAGTCAGGCTCCCCAGGAAGGGAGAGGTGGTCACTGTGGACCGAGGGCTCCCTCCAGCTGAGACTGCCCGCCCCCCCTGCTGACCAGGCCTTGGCATCCAGATGGGCGGGGCGAGCCCAGAAGCCCGGCCCCCAGGGGGTGCCAGGGGAGGGCCGAGAGGAAGGAAAGGCCAGGCCCTGACTCTGCTGCCCGCCTGCCCACCCCCAG
Seq C2 exon
TGCCATCTCCTCCATCCTGGGCACCTGGCTGGACCAGTACTCGGAGGACTTCTGTCAGCCCCCCGACTTCCCCTGCCTCAGGCAGCTGGTGGCCTACGTGCAGCTCAACATGCCCGGCTCCGACCTGGAGCGCCGGGCCCACCTCCTCCTGGCCCAGCTGGAGCACGCGGACCTCAGCGAGGCAGAGCCGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004194:ENSBTAT00000032653:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.136
Domain overlap (PFAM):
C1:
PF0061815=RasGEF_N=FE(19.8=100)
A:
NA
C2:
PF0061815=RasGEF_N=PD(31.7=48.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGCATCCTTCCCTACTCCA
R:
GAGGTCCGCGTGCTCCAG
Band lengths:
230-913
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development