BtaINT0122035 @ 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
chr11:97969944-97970320:+
Coord C1 exon
chr11:97969944-97970036
Coord A exon
chr11:97970037-97970214
Coord C2 exon
chr11:97970215-97970320
Length
178 bp
Sequences
Splice sites
5' ss Seq
CATGTACGT
5' ss Score
6.32
3' ss Seq
ATGCTGTTGTTCCCCTGCAGTAT
3' ss Score
8.9
Exon sequences
Seq C1 exon
CTGTCTTCATGGACCAGGTACTGGGTCATACTCTCAGGATCCACCCTCCTGTACTACGGAGCCAAGTCCTTGCGGGGCACAGACAGAAAACAT
Seq A exon
GTACGTTCCATGAAAGAACTCCCTGTGCTGGGCCTTCATGTAGTGTGAACTGCAAGGGGTGTGGGGGGAAGGTGGGGAAAGGTGGTGGGGATGGGAGGGAAGCTTGCCTGGCCCAGGTGGGCCTTCCTAGGGGAGTGGAAGGCACGGGCCTCCCAGCTATGCTGTTGTTCCCCTGCAG
Seq C2 exon
TATAAATCCACACCTGGTAAGAAGGTCTCCGTCGTGGGCTGGATGGTGCAGCTGCCCGACGACCCTGAGCACCCGGACATATTCCAGCTGAATAACCCCGACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000023843:ENSBTAT00000061364:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.097 A=NA C2=0.278
Domain overlap (PFAM):
C1:
PF0016924=PH=FE(26.8=100)
A:
NA
C2:
PF0016924=PH=FE(31.2=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:
CTGTCTTCATGGACCAGGTACT
R:
TGTCGGGGTTATTCAGCTGGA
Band lengths:
196-374
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development