HsaINT0137032 @ hg19
Intron Retention
Gene
ENSG00000136828 | RALGPS1
Description
Ral GEF with PH domain and SH3 binding motif 1 [Source:HGNC Symbol;Acc:16851]
Coordinates
chr9:129957370-129958910:+
Coord C1 exon
chr9:129957370-129957496
Coord A exon
chr9:129957497-129958752
Coord C2 exon
chr9:129958753-129958910
Length
1256 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
GTCCCTCTGCTGGCTCCGGTTCTGCGAGGTTCAGCCGGAGGCCCACCTGTCCTGACACATCTGTTGCTGGCAGCCTCCCCACACCTCCAGTCCCCAGACACAGGAAGAGCCACAGCCTAGGCAACAA
Seq A exon
GTGGGTGACTGAGCAAGCCCTCCCGCCGGGCTTCAGACCGTCCTGCACATGGGCCTGGGCACAGTGCAGGGAATCACTTGCTGGCTGGGTCCCTCCCCTGCCCTGTTCTGGGAGTTGCTGATGAGAGCTCTTGGAATCCTGGCCAGTGCGCTTTCCTGAGGCTGGTGTGAGCTTGGGAGGAGCTGAGGGGCACTGTGGCAGCACTGACTCCACACCACCGACAGGTGTCTCAGGCTCAGCAGCTGATGGAGGAAGGGTGCAGGGAAGGGCAGGGAAGTAGCAGTGGCATTCCAGAGAATTTGCCCAAGCCCAGTTAATGACTCATGGAAAACCCCAAAGTCCAGTAGACACCAGTGACTGTCATCCAGGGCAGTGTTCAGTTTCTCATGGCATCTGCCTACAGAGCAGTGAACCTGCTGGCTCATCAGTCCTGTGAGGCCCATAGCTGGGGGACATGCGTGAGCCCTCGGCATGGCTAGGGCAACTGTGCCTGTGTCTCCAGGGCATTAGGCACAGGCTTCCGAACAGATGAGTCCCTTCCTTCCTTCCTTCCTTCCCTCCCTTCCTTTTCTCCCTTCTTCCTTCCCTCCCTCCCTCCCTTCCTCCTTCCTTCTTTCCTACCTACCTACCTACCTACCACTTCCAAGGCACAAGCTCAGCCCAGCCTAGGCAGGCCCTGGAGGAGCTCCAAGGCTGGAGGAGAAAGAGTTGCTCTTTGAGTGTTAAGCAGCCCTCTGTGCTAGACACTCTGCATATGCCTGTCAAGCATGATCTCCCTGAGTCCCCATGCAGGCCTCTGAGGTGGGTGCTATTATTACATATTTTGAGAACGAGTCTAATGAGGTTCAACAAGGTGAAGTTCGTTGCAATGGTGGAAAAACATCAGAGCAAGGGTCTGGACCCGGTGCATGTGACTCCAGGAGCAGACATCCTGGCCACAGGCCCACTGCTGCTCACCTGTGCAGCCTCATCACTCACGAGCACATCTGCTCACTCGAGCCTCATAGCCACCAGGGGGATGGGCAGGGCAAGTATCGTTATCCCCATTGGATGGATGGAGAAACTGAGGCTCAGAGAAAGGATGTGACTTGCCCAAGGTCATGGCATGAGAGAGGACAGAGCCTGGGCTGTACCGTGGCTCTGGGTGGAGGCCTTTTTCCTGCAGCTGCACCATCTGCTCCGGCCCCAGGCAGGTGTAACCACTGTCACTCCATAGATAAGGAGCTTTGCCTTCTTTCTTCCTTTCCATTTTCCAG
Seq C2 exon
TATGATGTGTCAGTTGAGTGTAGTTGAGAGTAAAAGTGCGACATTCCCATCGGAGAAAGCAAGGCACCTACTGGACGACAGTGTCCTAGAGTCCCGCAGCCCCCGAAGGGGCCTGGCTCTGACCTCCTCCTCTGCTGTCACCAATGGACTCTCCCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136828-RALGPS1:NM_014636:12
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.935 A=NA C2=0.463
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTGCTGGCTCCGGTTCT
R:
AGGGAGAGTCCATTGGTGACA
Band lengths:
279-1535
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)