BtaINT0122022 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004194 | RALGDS
Description
Bos taurus ral guanine nucleotide dissociation stimulator (RALGDS), mRNA. [Source:RefSeq mRNA;Acc:NM_001101978]
Coordinates
chr11:103134553-103136050:-
Coord C1 exon
chr11:103135764-103136050
Coord A exon
chr11:103134769-103135763
Coord C2 exon
chr11:103134553-103134768
Length
995 bp
Sequences
Splice sites
5' ss Seq
GCGGTAGGC
5' ss Score
7.2
3' ss Seq
CCCCCCCCTGCCCCCTCCAGGAG
3' ss Score
10.8
Exon sequences
Seq C1 exon
CTCCAGTTCCAGCTCTGAAACCAGCTGCCGAGCCAGAGCCCACACTAGGCCCAGACCTCGAGCCCGCTCCGGCACTGGCCCCAGAGCCAGCCCTGATGCCAGCTCCGACGCTGCCTTCAGAGCTCGAGCCGGCTCTCTCGCAAACCCTAGAGCTCGAGCCGCCTGCAGCCCCAGACCCCCCCTGGCCTTTGCCCGTGGCTACAGAGAATGGGCTGGGGGAGGAGAAGCCCCACCTCCTGGCATTCCCTCCTGACCTTGTGGCAGAGCAGTTCACGCTCATGGATGCG
Seq A exon
GTAGGCAACCCATCTCAGCAAGGGTGGGCATGGGCACCCTTTCCCTCTGGCCTCTGCCACCCAGACCCTCTGGGCCCTGTCCAGAGCAGCTGGTGGTGGTTTAGTCGCTAACTCGTGCCCGACTCTTGTGACCCCATGGACTGTAGCCCACCAGGCTCTTCTGTCCATGGGATTTTTCCAGGCAAGAATACTAGAGTGGGTTGCCATTTTCTCCTCCAGGGGATCTTCCCCACCCAGGAATCAAACCCGGGTCTCCTGCATTACAGGCAGATTCTTTACCGACTGAGCCATGAGAGAAGCCCAGAGCAGGTGTCCAGCCCCAAGTTCCAGTGCCACTGTTATAAGTGTCACCTGGGCCAGGTTCCTCGCCCCAAGGCCTTGGCGGCCCTCCAGGCTGTGGACCTGGGACCCTGCCCTCCACATGCATTGACTGTGGATGACATCGGGTGGAACAGTCGGAAGTTGGGTGGGGTCTGGCCCCCTTGGGAGGGGAGAGGAGGGCTCGCTGAGGTGCCGCCAACTCCACGGACCACCCCCCGCCCCGGGTCTGCTGAGCAGGCCTCAGGAGCTTCTGCATTTATTAGGCACCTGATGTGTGTTAGACACCAGGACAGGCAGCAGACAAAGGCTGTGGTTGCAGCGCCCCGGTGAAGGTGCGTTTGCACACGGACAGGCCTGAACCGTGGCCTGGGGCTAAGATGCCGCTGGTCTGGGCAGGCATGAGCCTCTTCTGGCGCCGCAAGTCAGGATGGGCTGGTGGCAAGGCCCAGCTAGTTCTCTCCTGCCAGTTTCATCCTGGGTCGTTGACGTGCTGGGCGCCCACAGTGAGCAGGGAACAAAACCCTGAGACTTCACCCCGCAAGCCAGCTCCCCCACCCCCTGCACCACCTCCCCAGCTTCCTGAGCTCCAGCTCTGACCAGGGACCTTGGGGAGGTTGGGGCGGGGGGTACCTGGGCTGCGGCAGAGCCAGGTGACCCCCCCCTGCCCCCTCCAG
Seq C2 exon
GAGCTGTTCAAGAAAGTGGTCCCCTACCACTGCCTGGGCTCCATCTGGTCCCAGCGGGACAAGAAGGGCAAGGAGCACCTGGCCCCCACCGTGCGTGCCACCGTCGCCCAGTTCAACAGCGTGGCCAACTGCGTCATCACCACCTGCCTCGGGGACCGGAGCGTGTCAGCCCGCCACAGGGCCAGGGTGGTGGAGCACTGGATCGAGGTGGCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004194:ENSBTAT00000032653:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.823 A=NA C2=0.014
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=PU(7.4=16.7)
A:
NA
C2:
PF0061714=RasGEF=FE(33.0=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:
GTTCCAGCTCTGAAACCAGCT
R:
GCTCCTTGCCCTTCTTGTCC
Band lengths:
358-1353
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development