BtaINT0122011 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004194 | RALGDS
Description
Bos taurus ral guanine nucleotide dissociation stimulator (RALGDS), mRNA. [Source:RefSeq mRNA;Acc:NM_001101978]
Coordinates
chr11:103138067-103139619:-
Coord C1 exon
chr11:103139494-103139619
Coord A exon
chr11:103138261-103139493
Coord C2 exon
chr11:103138067-103138260
Length
1233 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
TCTCCTTTGTCTCTCCGCAGTAT
3' ss Score
11.79
Exon sequences
Seq C1 exon
GCACTGTCTTTGCAGAGCTCCACGCAGGAGATCGGCGAGGAGCTGGTCAACGGGGTCATCTACTCCATTTCCCTGCGCAAGATCCAGGTGCACCACGGCGCCAGCAAGGGCCAGCGCTGGCTCGGG
Seq A exon
GTGAGTGCGGGAGGGCCCGGGGTCCAGGGGCTTCCCACAGGGATCTGGGCACCAACCCTGCCCCCCACAGCCCAGTCCACAGTTCACTGCTCTCTTATTTGTGTGAAACATCAAAAAGACACTTTCATGCTCTTTCCCTTCACGTTAGGCTGGGATTGTAAGATAAGGAAGTTAGAGAAGGCAAGGTTCGGAAAAAGAACAAGACCGGCAATTTATAGGAACGGATCGCCTTTAATGAGGCGAGAAGGGGCAGCAGTCAGATTAGTGAGCTGCTGCACTAACCCAAGAAGAGAGTAAGTAAATATAGGCATATATGTGGACATCTACTGTGTTAAGGGGGCCTGTTCTCCAAGGTTGTTACCCTGCAGGGCTTATTTATGCATTTTTCCCCAGTTTTTTTTTTTTTCTTTTTCTCTTTGTCCATTGTGGATAATCGGTAGGTGTCGTCCTTTATCTGTTTTATTGTTTGGCCACACTACGCGGCAGGCATGCGGAATCTTAGGTCCCCAGTCGCGTGGGTTGGTTCTGCGCCCCCTGCGTTGGAAGCGTGGAGTCTTAACCACTGGACCGCTGGGGAAGGCCCTGCCTCTCACTGTCACGGGTGGCCATCAGCCTGACTGCCCTTCCACACGTCTCCAACCTTACATCATTTGACTTACTAGGACTTTAAAAAAAAAAAACCGAAGGGCTCAGGCTACTATATATGGTTCTCTACAATCACTGTGATGGAGCCCAGCCCCACAACCCCTCCAGGTCGGAGCAGGGGCCTGACGGATGCACAACCTTTCAGAAAGGAGGCCGATTGCCACCGTGACTCAGGCTTTCACTGCCCGGGACCTGGGCCGAATTCCTTTCTGTGGCCATTTCCCCAGTGCTGCCCCGACAACCTCTGTGTCCAGACATACTGTTCCCGGTACCCGGGGCATGAGCCTCTGTTTTCCCACCTCTAGAATGGGTCTGTTTTGCCAGAGCTCATGGGGATGATACTCCTCATATTGACGAGCTACGACCACTACTCAGCTAATAAAATGACCTCAAAGAGTTGTTTTTCATCATCCCCACCTCCAGTCCGAGCTGAGACCCTCATTCCATTCAGGGCACTCACGTTCCCATCTCCGGCCAGAGGTCACTGAGCACTTGGGACTTCCTCTGAGCTCCAGCACCCCATCCACCGCCCACCCCTCGGGCCACAGTGCTGCAGCTGACCATCCATTCTCCTTTGTCTCTCCGCAG
Seq C2 exon
TATGAAAACGAGTCGGCCCTGAACCTGTACGAGACCTGCAAGGTGCGGACTGTGAAGGCGGGCACGCTGGAGAAGCTGGTGGAGCACCTGGTGCCCGCCTTCCAGGGCAGCGACCTCTCCTACGTCACCATCTTCCTGTGCACCTACCGAGCCTTCACCACCACCCAGCAGGTCCTGGACCTGCTGTTCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004194:ENSBTAT00000032653:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0061815=RasGEF_N=PU(47.5=73.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTGTCTTTGCAGAGCTCCA
R:
TCTTGAACAGCAGGTCCAGGA
Band lengths:
318-1551
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development