HsaINT0175327 @ hg19
Intron Retention
Gene
ENSG00000104833 | TUBB4
Description
tubulin, beta 4A class IVa [Source:HGNC Symbol;Acc:20774]
Coordinates
chr19:6501298-6501634:-
Coord C1 exon
chr19:6501526-6501634
Coord A exon
chr19:6501409-6501525
Coord C2 exon
chr19:6501298-6501408
Length
117 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
CTCCATCTGTTTCCCTGCAGGAG
3' ss Score
11.71
Exon sequences
Seq C1 exon
TTTTGGGAGGTTATCAGTGACGAACATGGCATCGACCCCACAGGCACATACCATGGGGACAGTGACCTGCAACTGGAGAGGATCAACGTGTACTACAACGAGGCCACAG
Seq A exon
GTAGGGCGAAGGAGGCACCTTCCAGGTGGGAAGGGGCAGCTGGGAGGGAACAGGATGCTACCGGGCGCCTGTGGTTCCTGGCACGCATCGAACTGCCCTCCATCTGTTTCCCTGCAG
Seq C2 exon
GAGGAAATTATGTCCCCAGAGCGGTGCTGGTGGACCTGGAACCCGGCACCATGGACTCTGTCCGTTCTGGCCCCTTCGGTCAGATCTTTCGGCCGGACAACTTCGTGTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000104833-TUBB4:NM_006087:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.148 A=NA C2=0.026
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=FE(16.2=100)
A:
NA
C2:
PF0009120=Tubulin=PU(27.0=95.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGGGAGGTTATCAGTGACGA
R:
CAAACACGAAGTTGTCCGGCC
Band lengths:
218-335
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)