BtaINT0122031 @ 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
chr11:97950839-97952378:+
Coord C1 exon
chr11:97950839-97950965
Coord A exon
chr11:97950966-97952220
Coord C2 exon
chr11:97952221-97952378
Length
1255 bp
Sequences
Splice sites
5' ss Seq
CAAGTGGGT
5' ss Score
4.82
3' ss Seq
TCTTCCTTTCCATTTTCCAGTAT
3' ss Score
8.66
Exon sequences
Seq C1 exon
GCCCATCCAGTGGCTCCAGTTCCGCAAGGTTCAGCCGGCGGCCCACCTGTCCGGACGCCTCTGTGGCCGGCAGCATCCCCACACCCCCGGTCCCGAGACACAGGAAGAGCCACAGCCTGGGCAACAA
Seq A exon
GTGGGTGACCGCATGAGCCCCCGACATTGGGGTCAGGGTGGGACTCAGCATGGGGCGGGGGCTGAAGAGCTGCTGGGGATGCCAGCCCACCCGGGACTCCCCTGCCTGTCTGGGAGCTGCTGATGGGCGTTCTTGGTCTTCCGGGCTGGTGCCCCCTCCTCAGGCTGGCATGGGCTCAGGAAGGGCAGGGGTGGTCGTGGCTGCATGGCCCGTGTACTGGTGACAGGTCTCTGGGGCTCAGCAGCTGATGGAGGAGGCATGCAGGGAAGGGCAGGGAGGCAGTGGTGGGCTTTAGCTGGTTTGCCCAAGCTCGGTTAGTGCCTCCTCGTGGAAAGAAAACCCCAGGGGCCCGGGAACACTGTGACCATCATCAAGGGAGCACGAGGTATCTCATGGTGCCTGTGTGTCATGGCTCAGCATCTCCACTTGCTAAAAGTTGCAGAAAGCCTGCAGAGCCCAGAGCCTGCTGCAGGTTCCCCCGGCTCCATGGGGCTGACCAGCTGGGGGACATGTGTGGTCCTTAGCATGGCTGGGCAGATGTGCGCGTGTCCCCAGGATGTTGGGCACAGATCCCTGAGCAGTTGGGTCCCTTCTGCCCTCTCTCCCTCCCTCTCTCTCCTCTCTGTTCCTTCCTTCCTTTCGTCCTCCTACCGTTAAGACACAAGCCTCAGCCAGCACAGGCTAGCCCTGGAGAAGAAAAGCCTTGCTTCTCCGAGAGTTCGGGGCTTGCTCGGTGCTGGCTACACTGTCACGTGCCTGGCCAGCATCCTCTCACTGGGCCCCTGCAGGCCTCCGGAGTACCTGCCTGATTCGTGTTGTAAGAATGAGGCCAGGAGGTCCAACAGGGGAAGCACCTGGCAGTGGTGCTGGGTACCTGGGCAGTGGGTAAGGCTGGAGCAAGGACTTGGACCAGGTCTATGACTCCAGAAGCAGAAGTGCTGACCACGAGGTCAGCCATCTTTTGGCTTGTTTGGCCCCAGCACTCGAAAGCACCATCCACTCACTTGAGCTTCACAGTCATCCTAGGAGTCAGGCAGGGTGAGTAGCGTGAGTCTTCCATTTGCCAGAGAAACTGAGGCTCAGAAGAATGATGTGACTTGCCCAAGGTCACGCCATGGGGAGATAGGACCGCGGTTCTGGATGAAGGTCTTTGTCCTGCAGCAGTGCTGTTCTGCTCAGGCCCCCGGGGCAGGTGGAACCACTGTTGCTCTGTAGATAAGGAGCTTTGCCTTCTTTCTTCCTTTCCATTTTCCAG
Seq C2 exon
TATGATGTGTCAGTTGAGTGTAGTTGAGAGTAAAAGCGCGACATTCCCGTCGGAGAAAGCGAGGCACCTGCTGGATGACAGTGTCCTAGAGCCCCGCAGCCCCCGCAGGGGCCTCGCCCTTGCCTCCTCCTCCGCCGTCACCAACGGACTCTCCCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000023843:ENSBTAT00000061364:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.907 A=NA C2=0.537
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCCAGTGGCTCCAGTTCC
R:
GAGGGAGAGTCCGTTGGTGAC
Band lengths:
281-1536
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development