HsaINT0037722 @ hg38
Intron Retention
Gene
ENSG00000188986 | NELFB
Description
negative elongation factor complex member B [Source:HGNC Symbol;Acc:HGNC:24324]
Coordinates
chr9:137256329-137257054:+
Coord C1 exon
chr9:137256329-137256428
Coord A exon
chr9:137256429-137256823
Coord C2 exon
chr9:137256824-137257054
Length
395 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
CAGCCTGTGGTGTCATGTAGGTT
3' ss Score
5.89
Exon sequences
Seq C1 exon
GTACAAGAAGCTGGAAGACCTTCTGGAGAAGAGCTTTTCTCTGGTGAAGATGCCGTCCCTGCAGCCCGTGGTGATGTGCGTCATGAAGCACCTGCCCAAG
Seq A exon
GTAGGGCCCTAACCCTAACCCTGATGGCGTGGACCGTCCGCCCACTCTCATGCCCTTGGTTAGTGGAAGTTCCGGTGGCCGCCTAGCTCCGGGAGCTTCCTGTGCTGCCTGCCCAAGTGCTGTCCATGGTGAGCTCTGTGCTGACTTCTCCCACATGAGCCGCGTGGAGACCGAACCTTAGCACTGGAGTTAGGGTGTGGGGCCCCTCCTGGGAAAGAGCTGTTGGTATTTAGCATGTCTGTCTGACATGCTGGGGCCGGGGAACCAGTCATAGGTGCCCTGTGGGGTGGAGCTTAGCTCGAGGTGGTCTCTGCGGGGCTGAGGCCTCTTGGCTTGTCTTGAAGGAGACCCAGGGACACAGGTGCCACTCACAGGCAGCCTGTGGTGTCATGTAG
Seq C2 exon
GTTCCGGAGAAAAAACTGAAGCTGGTTATGGCTGACAAGGAGCTGTATCGAGCCTGCGCCGTGGAGGTGAAGCGGCAGATCTGGCAAGACAACCAGGCCCTCTTCGGGGACGAGGTTTCCCCACTCCTGAAGCAGTACATCCTGGAGAAGGAGAGCGCTCTCTTCAGTACAGAGCTCTCTGTCCTGCACAACTTTTTCAGTCCTTCCCCCAAGACCAGGCGCCAGGGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188986:ENST00000343053:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF062098=COBRA1=PU(3.4=47.1)
A:
NA
C2:
PF062098=COBRA1=FE(16.0=100)
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:
GTACAAGAAGCTGGAAGACCT
R:
CTGGTCTTGGGGGAAGGACTG
Band lengths:
318-713
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