HsaINT0138324 @ hg19
Intron Retention
Gene
ENSG00000213079 | RBM16
Description
SR-related CTD-associated factor 8 [Source:HGNC Symbol;Acc:20959]
Coordinates
chr6:155124678-155126620:+
Coord C1 exon
chr6:155124678-155124757
Coord A exon
chr6:155124758-155126502
Coord C2 exon
chr6:155126503-155126620
Length
1745 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGA
5' ss Score
4.8
3' ss Seq
CCACCTGTTTTTCCTTTTAGTTC
3' ss Score
10.81
Exon sequences
Seq C1 exon
AAGTTGATGGATAGGTTTGATTTTGGGGAAGACTCTGAGCATAGTGAAGAACCCAAAAAGGAAATTCCAGCTTCACAACT
Seq A exon
GTAAGAATTTTTTCTTTATAGCCATAGTTTTTTTATATTTAGTGGGATGTTGCCATCTGAATTACTAAGTATACTTAGTAAGTTGGGATTATTATTTCAAGCTGTTGAACCTCTAACATTATACAAAGGTGGTAGAGATATGTCTTGTTGTCTCTTTGTATTATTTTGAGTCTTTTCTCAGATCTTTGCAAATAGACTGTATCAAAGTTACCTATAAGAACATTGATACATATTGGTAAATCTGGTTGTAATATTTTCCATATTAGGCTTTAAGTTATTTAACTTAATTGTAAGAGTGGTTGGAATACTAGGAATGAAGCTTGCTTCTAGTGCTTAGAGGCCACTTCTAGAAAGCATATGAAATTGTGGAAACACATCAACCTAATGAGAATTAAGGATTGGAGTTATGAGGATTTTTTTTTTTGTAAAGAAATGTGTTGTATGTTTTTATTAAATCAGTTACTTTTTTTTCCCTAAACAATTCTGCAGTGCCCAAGGTTCTGTGAGGGTATGTGAATGGACTAGTAGGGGGAAGATGTTGGAGGAGGCAGGGGTAGAAGTTGGGAGAATGGAAGAAGGATGAATGGTGAAAGTCTGTGGGTCTCTTGTTTCAAACAGAAGTTATTAGTTGTATATATTGGGGTAATAAACAAAAACATAATTTTAGAATATGTTAGATACAAATGTATCATTTTAGTAAAATGATTCCCCTTGACAAAATTTAAAAACTAGTATTTTAGATTATGAATTGCAAACTTGCAAGCAGCATTTGAAATCATGTTGATCAGTGTCCTAAACAATGTAAGAATCTCCTTTAACAGTCCTGATGATACAGTTTATTTATCCAGTATTTTAATGCTTTCTGTAATGAGAAGTTAACTAATTGTTATTATTGTGTGTTCTTTTGTTGAGCTGAATCCTGTTTCCTTTATTTTCTATTAATATACACTGACCCATGTTTTGCTTTCTGAAGCAAGGAATCAAATTTACTCCGCTATCTTTAGAGATGTAGCTTTTCATTATTTGAAGACAGGTATCATTCTTCCCCTTAGGTTTATTTGCTTCAGATGAAGTACACTTTTTTCCAACTGTTTCAAGACTTCTCACCATCCTGTTTGGCTCTTTTGGGATGCCCTTTTTATTGTTAATGTCTTACCTTGTGGCACCCAGAATCCCAGGTGTATTCCAGGTGTGAATTTCCAAGAATATAGTTAAACTATTATTTTTTCTTATTTAAACAGTATCTGTCTCTGTTAACATACCTAATAATGTATATGATTTTCTAAAGGAAGAATATTAGTTTTATAAATTTTATGGTCAATTACAATGGTAGATTTCACACATACTGATTGATAGACTGTTTTTCTATCTCATAGTAAGAGAAGGAGTTAAAGTAACAATGTTTAAATGTTTAAACTTTTTATAAATATTGAGATTTTCTTAATATGCTCTAATGAAAAAGCAGTAATTTATATGTATTTAACAGCCTGAGATGGTAATATCAGATCTTCAGCAGAGCATCTCTGACACGTTATCCATCTATTGATGTACAATTGAAGAATGTATTTTTCTTTTAATAATTAATGTTCTCAAGTATTCTACTTTAAGTATTAAAATTGCAAAAGAAAACATGCAGTAGAATATGTTTTATTGAATTGACTTTTTTGTTTTCTTTGAATACTCAGTTATTTTCATAGTATCTTTAGTGGGTTTTAAAATATGTTTCCACCTGTTTTTCCTTTTAG
Seq C2 exon
TTCTCACGTTTCAGAATCTGTGAACAATTCCATTTTTCATCAGATAGCAGAACAACTACAACAGCAAAACCTAGAACATCTCAGACAGCAGCTCTTGGAGCAGCAACAGCCTCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000213079-RBM16:NM_014892:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.963 A=NA C2=0.625
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:
AAGTTGATGGATAGGTTTGATTTTGG
R:
CTTTTGAGGCTGTTGCTGCTC
Band lengths:
198-1943
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)