HsaINT0138323 @ hg19
Intron Retention
Gene
ENSG00000213079 | RBM16
Description
SR-related CTD-associated factor 8 [Source:HGNC Symbol;Acc:20959]
Coordinates
chr6:155123105-155124757:+
Coord C1 exon
chr6:155123105-155123281
Coord A exon
chr6:155123282-155124677
Coord C2 exon
chr6:155124678-155124757
Length
1396 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAA
5' ss Score
6.33
3' ss Seq
TTTCTCCTTCTTTCCCCCAGAAG
3' ss Score
11.43
Exon sequences
Seq C1 exon
CTTCAACAATTAATACAAACCTTACAGATACAACAACAGAAGCCCCAGCCTTCCATTCTGCAGGCCCTAGATGCTGGTCTTGTTGTTCAGTTGCAAGCTCTTACGGCACAACTTACAGCTGCAGCTGCAGCTGCCAACACTCTTACTCCCTTAGAACAGGGAGTCTCCTTTAACAAG
Seq A exon
GTAGAAATTAAAATATCGGATCAAGTCTATATGAATTATTAAATATTATATACTATCATGGATTTTAATTCTATAAATAAATTTTATTGTAGACTTTCAGTATCTCCTGTACACTGTATAAGACAGTCTGAATTTTACAAAAGGTTCAAACTTCTGAAAAAAATTAAGTAATTAAAAAAATTTTTCCTAGGCCAGGCACAGTGGCTCACACCTATAATCCCCAGCACTTTGGGGGAGCGCAAGGCAGGCAGATCACTTAAGGCCAGGAGTTTGAGACCAGCCTGGCAAACATGGTGAAACCCCATCTCTATTAAAAATACAAAAATTAGCCAGATGATGCGTGCCTGTAATCCCAGCTACTGGGGAGGCTGAGGAAGGAGAATTGCTTGTACCTGGGAGGTAGAGGTTGCAGTGAGCCAAGATTGAGCAACTGTTCTCCAGCCTGGGTGACAGAGAAAGACTCTTGACTCAAAAAAAAAAAATTTTTTTTGAAACATTTTTGAAACATTTAAAATATTTTCATTTGACTAAAAATAACTAGTCAGTAAAATCTTGTATTCACCACTGAGGCAAGTGATTACTTTCTGAGCTTGTCTGATTTCTTTCATGGGTGCCACATTTTACTGTGATGCTCTGGGTTCTGTAATTTGGACCTGCAAAAATTAAAATTCTTTAATCAATATGTAAAATGTTTAAAGGAAACTTCTCTACAACTAGTCACTATACTGTAACTATAATAAGTTGATGCCTAAATTATTAATAATTAAAGTGTTTCTAAAACTTAAAATCTTTCATGTACAATTTAGTGTGTGATATTCTTAGTATGCTTATTAATTATGGGAATATCATACTACTTGGAAGTGGTGTTCATATTTTTAAAATTTGTACTTTTTATAGGAAAGTAGATACTGATTTATTGGATTATTACTTAGACTGTTTTGGCCAGCAGCTTCTAAGTCTAATATAGTCTAACACTAAATAGCTAGACCACATAAAAAGCCTTTAAATTGAGCATTCAGAAGAATAACAGCATTCTAAGATGAGAACCATATTAGGAATAGATCCATTGAATATGGCCCTAGATGTTTTATCAAGCTTATTACCATGGAAAAACCACCTAATTATTTTAATTCTTAGTCTTCTGTAAAATTTGAGTATTAGTGTTTATCCTGCCTCTATCATAATTTGTTTTGTTATGTAAGATAATACATATCAAAATGCTTTAAAGAAAAGATCTACTCAAAACACTTTATAATAGTATAAAGTGATACAAAATGTTTATTTACACATTAAATGATAGATATAACGGAATGCCATTGACATTTAAAATAGCATTTGTAACTTGTATTTGTGTGAAGCACTTTTTAATATGTCTGTTTCTCCTTCTTTCCCCCAG
Seq C2 exon
AAGTTGATGGATAGGTTTGATTTTGGGGAAGACTCTGAGCATAGTGAAGAACCCAAAAAGGAAATTCCAGCTTCACAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000213079-RBM16:NM_014892:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.186 A=NA C2=0.963
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTACAGATACAACAACAGAAGCC
R:
AGTTGTGAAGCTGGAATTTCCT
Band lengths:
238-1634
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)