BtaINT0122019 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004194 | RALGDS
Description
Bos taurus ral guanine nucleotide dissociation stimulator (RALGDS), mRNA. [Source:RefSeq mRNA;Acc:NM_001101978]
Coordinates
chr11:103137213-103138260:-
Coord C1 exon
chr11:103138067-103138260
Coord A exon
chr11:103137273-103138066
Coord C2 exon
chr11:103137213-103137272
Length
794 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
GTCCTCACGGCCTCCTCTAGATA
3' ss Score
5.25
Exon sequences
Seq C1 exon
TATGAAAACGAGTCGGCCCTGAACCTGTACGAGACCTGCAAGGTGCGGACTGTGAAGGCGGGCACGCTGGAGAAGCTGGTGGAGCACCTGGTGCCCGCCTTCCAGGGCAGCGACCTCTCCTACGTCACCATCTTCCTGTGCACCTACCGAGCCTTCACCACCACCCAGCAGGTCCTGGACCTGCTGTTCAAGAG
Seq A exon
GTGAGCGCCCCGCCCCTCCCTGCCCACCCGCTGGCTGTGTGTCTTGGGAATGTCGCTTTGCCTCTCTGAGCCTCAGTCTGCTCCTGTGAAAACAGGCTGCAGGAGGCCGGACCTCACAGCGTTGGCAGGACAGCAGCCTCACACCCGGTCCCTTGGAAAGGGCTGCCGAGGGTTGGCGTGGTTTTAATTAAGGTGTTCCTCCACCGTGAAGGGGCTTCCCTGGTGGCTCAGACAGTAGAGAATCTGCCTGCAATGTGGGAGATCCAGTTCAATCCCTGGGTCAGGAAGATCCCCTGGAAAAGGCAATGGCTACCTACTCCAGTATTCTTGCCTGGAGAACCCCGTGGACAGAGGAGCCTGGCGAGCTATAGTCCATGGGGTTTCAGAGAGTCAGACACGACTGAGTGACTAACGCTTTCACTCTTTCCCCCCATGAAGAAGCTCTCTGCCTCCAGCCTTTGGGCAGAGTCATCTTCCCATCTGTAAAGGAAGTTCAGGAGCCTATTTTGGGGTCCCCTCCTGGGATTAGCCAGAGCAGGGATCACTGGGGGCTGGCAGAAGGCCCCAGGCCACTCAGGTGTCTGTAAGGTGCTGCTTGGGGTTCATTCATTCAGCAAATCTGTATCCAGCACCTACTGTGTGCAGGCACTTTTCTGGGCTTTTGGCTTAATTCAGGGAAGGGAGCAGATAGGAATCCTGCCCTCCCGGGCTTCCGTGCGAGTCGGGGGGTCAGCCGGTAACGCTGGACGTCATAGCAGGTACGGTAGATGTGACGTCCTCACGGCCTCCTCTAG
Seq C2 exon
ATATGGGTGCATCCTTCCCTACTCCAGCGAGGACGGCGGACCCCAGGACCAACTCAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004194:ENSBTAT00000032653:2
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=0.048
Domain overlap (PFAM):
C1:
PF0061815=RasGEF_N=PU(47.5=73.8)
A:
NA
C2:
PF0061815=RasGEF_N=FE(19.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATGAAAACGAGTCGGCCCTG
R:
TTTTTGAGTTGGTCCTGGGGT
Band lengths:
254-1048
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development