HsaINT0138489 @ hg19
Intron Retention
Gene
ENSG00000102317 | RBM3
Description
RNA binding motif (RNP1, RRM) protein 3 [Source:HGNC Symbol;Acc:9900]
Coordinates
chrX:48433949-48434807:+
Coord C1 exon
chrX:48433949-48434055
Coord A exon
chrX:48434056-48434701
Coord C2 exon
chrX:48434702-48434807
Length
646 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGG
5' ss Score
4.41
3' ss Seq
CTTGTGTCTCCCACACTTAGTCT
3' ss Score
6.61
Exon sequences
Seq C1 exon
TGGTCGTTGTCAAGGACCGGGAGACTCAGCGGTCCAGGGGTTTTGGTTTCATCACCTTCACCAACCCAGAGCATGCTTCAGTTGCCATGAGAGCCATGAACGGAGAG
Seq A exon
GTGGGGCCTCCTATCTGCAGAGGGACCTTGTCCCCATCTGCGGCTTCCTTCATTCTTTTTGTTTTTCCCTCTGTGTCTGCTCGGGGCAGCGTGGCCACCAAGCCCCGCAGTGCCCACTCACAGGAGCATGACTGCCTTTTGTTCTAGGGGGTGGAGGGCAGCGGCAGACAGAGCCTGGCCGCCTGGGAGGCGACGACTGGTCCTGCATGAGGCCGAGAAGCCACCTGTGGATGGTTGACCTGCCTTGGGCTTAGGTAGTAGAGTCTGCAGACCTGTGGGCCTGGCCCGGAGAGGACCTCGTGAGTCTTCTGACATGGACTCTGAAGCCTCAAACCAAGAGAGGTGTCTGTCTAGCCCTGATAGTCGGGCAGCTTAGAGGAGTGGGGAGGAGAACTCAGCCTGAGTTCAGTCAAGATGTAAGTAGTAGCAAGGGGAACATGGTGCATTCAGGTCATTTTGTGTGGGATTCTATAGCTCCTGATGAAGCCATTCTGGGGTAAAGGAGCTTATTCTGGAACATGGCACCCAGAACCTGGTGCCCAGCAGGAATTTTTGGCCTCTTTTGCCCACTTACCCTTGCCTGCTCTTCCCTCACCATTGCCCTGACTGACTGCCAACCCATCATCCTTGTGTCTCCCACACTTAG
Seq C2 exon
TCTCTGGATGGTCGTCAGATCCGTGTGGATCATGCAGGCAAGTCTGCTCGGGGAACCAGAGGAGGTGGCTTTGGGGCCCATGGGCGTGGTCGCAGCTACTCTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000102317-RBM3:NM_006743:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.329 A=NA C2=0.565
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=FE(50.7=100),PF093415=Pcc1=PU(51.4=52.8)
A:
NA
C2:
PF0007617=RRM_1=PD(9.9=19.4)
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGTCAAGGACCGGGAGACTC
R:
TCTAGAGTAGCTGCGACCACG
Band lengths:
206-852
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
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)