BtaINT0122017 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004194 | RALGDS
Description
Bos taurus ral guanine nucleotide dissociation stimulator (RALGDS), mRNA. [Source:RefSeq mRNA;Acc:NM_001101978]
Coordinates
chr11:103128328-103130109:-
Coord C1 exon
chr11:103129867-103130109
Coord A exon
chr11:103128443-103129866
Coord C2 exon
chr11:103128328-103128442
Length
1424 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGC
5' ss Score
8.69
3' ss Seq
CCGGCCCCTGCTCTGTCCAGGTG
3' ss Score
8.6
Exon sequences
Seq C1 exon
TTCTGGGAGTCAGCCTCCCAGTCGTCCCCAGAGACCTCCGGCATCAGCTCGGCCTCCAGCAGCACGTCCTCCTCCTCGGCCTCCACCACGCCCGTGGCCAGCACGCGCACCCACAAGCGCTCCGTGTCCGGGGTCTGCAGCTACGGCTCCTCACTGCCCCTCTACAACCAGCAGGTGGGCGACTCCTGCATCATCCGGGTGAGCCTGGACGTGGACAACGGCAACATGTACAAGAGCATCCTG
Seq A exon
GTAAGCCGGGGGGCCGCCCCGGGCGCACAGACCCGTACTGACCGCCGTGGCCATCCCTGCCCCCTCCTGGAGCCGGCCTCCCAGTGGGCTGGTGAGCCGGGGGCCGCCCCGGGCACGCAGACCCGTACTGACCGCCGTGGCCATCCCTGCCCCCTCCTGGAGCCGGCCTCCCAGTGGGCTGGTGAGCCGGGGGCCGCCCCGGGCGCGCACACCCGTACTGACCCCAGTGGTCATCCCTGCCTCCTCCTGGAGCTGGCCTCCCAGTGGGCTGGTCAGCCAGGGGCTGCCCCGGGCACGCAGACCCGTACTGACCCCAGTGGTCATCCCTGCCCCCTCCTGGAGCTGACCTCCCAGTAGGGTGGGGAGGACGGAGGGCCAACCACATGCAGGACTAAAGAGGCCAGTGCTGATGACCGATGCTGAGCAGTGCTGGGGGCGGTGGATCAGGGGTTTCAGCAGCCGCGGGGCAGGGCCTCCCTGATAAAGGGTCTGAGTTGGGGAGAGGCTTGTGCCTGGGGCTTGAGGGGAGCAGCAGGAGGCCCTGGGTGAAGGAACTGGCGTCGGGGGACAAGTCCGGGGGTCAGGGGAGTGTCAGGGGCCTGGACCTGGGGGGAGGGAGGTGGGAGCCCCTGTAAGCTGGAGCAGAGGAGGACCACCAGGGACCCCCCCATCTCCCTGGGGGATGGGCAGGGAGGCCGGTTAGGAGGCTGCTGGGGCTGCACCAGGCTGGTGGCCGGCAGTCTCAGACACCGGATATAATTTGAAGTTCTGACATCTAGCCAGCGGGAGTCGCCCACAAACGCTGTGTGTGCTGGGGGGCAATCACTGGGGGGACTCTTCTCATTCTCCAGAACTCAGGCTGCTGATGAGCCATTTGCACACCCCCCCCACAACCCTCCTATCCACCCCCACTGGGTCAGGTGCCCCTTTATAACACCGTCACCTGTGTGGCCTGTGTCCAAGGCCTGCCTATGATCTGGCCTTCGGGATCAAAGCAGCAGGGGTCCACGCTGTGCTCCATTACAGCCTGTAGGCCACGCAGGCCTGGCATGGAGGCGGCCACCGGGCATCCAGCCAGCTCCTCCTCTCCCCTCCAGGGCGGGACCAGATGCTGTCTGTACCCAGACCACATGGATACCATTGACCTGGGTGGGCGGGGTTGAGGGGAGCAGCCCCCCAGGGGCAGGCAGTTTCTAGGTGGTGTGGCAGGAGGGGGCAGGCTTGCAGGAAATGGGGGGCAAGAGTGATTGGGAAGGACCCCTCATCATTGCACGGAAGCCTTCCCAGAGGAGCAGGAGAAGCTGGTGTGACCCTCACGGACCCAGCACCCGGCCAGAGGTGTGAGCCGTGCGCACTGCGCTGCGACAGCTCTGAGGGCCCAGCCCAGACCTCTGCCCTGACGGCCCGGCCCCTGCTCTGTCCAG
Seq C2 exon
GTGACCAGCCAAGACAAGGCTCCGGCTGTAATCCGCAAGGCCATGGACAAACACAACCTGGATGAGGACGAGCCCGAAGACTACGAGCTGGTGCAGGTTATTTCGGATGATCGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004194:ENSBTAT00000032653:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.475 A=NA C2=0.551
Domain overlap (PFAM):
C1:
PF0078818=RA=PU(22.7=24.7)
A:
NA
C2:
PF0078818=RA=FE(43.2=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:
GAGTCAGCCTCCCAGTCGTC
R:
CCGAAATAACCTGCACCAGCT
Band lengths:
343-1767
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development