BtaINT0122036 @ bosTau6
Intron Retention
Gene
ENSBTAG00000023843 | RALGPS1
Description
Bos taurus Ral GEF with PH domain and SH3 binding motif 1 (RALGPS1), mRNA. [Source:RefSeq mRNA;Acc:NM_001193100]
Coordinates
chr11:97970215-97971003:+
Coord C1 exon
chr11:97970215-97970320
Coord A exon
chr11:97970321-97970911
Coord C2 exon
chr11:97970912-97971003
Length
591 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
AGTGGCCTTTCCACCACCAGGCA
3' ss Score
8.24
Exon sequences
Seq C1 exon
TATAAATCCACACCTGGTAAGAAGGTCTCCGTCGTGGGCTGGATGGTGCAGCTGCCCGACGACCCTGAGCACCCGGACATATTCCAGCTGAATAACCCCGACAAAG
Seq A exon
GTAGGTGGCAGGCCAGAGCTGGTGCCTGTAGCCTCTCTCTGCCTTGTTCCTTCTGGGGCTAAATGTGCGTTTTGAAATGCACAAAAGTAGGAACTTTTGAGGCTGCTGCTTTCCCTTCACGTTAGGTACTGATGTTCACAGGGTCCCATTAGTCCCTAAAAGCTGCTTAGACCGTGGTGGGTGTGTCCAATGAGCAGTGCGCATGGCAAGTGGCTGCAGGAATCCTTTTCACCTGTGGCTGCTGGGGCCCATCTCCCCTGGAGCTGTGGCTTTGGGGTCTTGGAATAAATAGCATCGTGCTGGATAAGGCAGTGACTTTGAAGCTGGAGGAGTCTGTTTTATCTTATGCATTTGACACATTATTCTGAGAAGGATCCACGGGCTTCCCCAGAGCCCAAGACACCATGGCGGGGAAAATGGTTGAGAGAGATAGGGGCGGGAGGGGCACAGAAGCCTCCTGATCCACGCGCCCCGACCTTGGCTGCTCCTGACCTTCCCCAAGGCAGTCACCCAGGTTCCCGCTTATCTTCACACCATGGGCAGACCCTCCCATGTGACCTTCCTCTCAACCAGTGGCCTTTCCACCACCAG
Seq C2 exon
GCAATGTTTACAAGTTCCAGACTGGCTCCCGGTTCCATGCAATCCTGTGGCACAAGCATTTGGATGATGCATGTAAAAGCAACAGGCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000023843:ENSBTAT00000061364:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.278 A=NA C2=0.016
Domain overlap (PFAM):
C1:
PF0016924=PH=FE(31.2=100)
A:
NA
C2:
PF0016924=PH=PD(22.3=80.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATAAATCCACACCTGGTAAGAAGG
R:
CTGAGGCCTGTTGCTTTTACA
Band lengths:
198-789
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development