HsaINT0175316 @ hg19
Intron Retention
Gene
ENSG00000137285 | TUBB2B
Description
tubulin, beta 2B class IIb [Source:HGNC Symbol;Acc:30829]
Coordinates
chr6:3226795-3227968:-
Coord C1 exon
chr6:3227721-3227968
Coord A exon
chr6:3226904-3227720
Coord C2 exon
chr6:3226795-3226903
Length
817 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
ATGCAGCCTTTCTGTCTCAGTTT
3' ss Score
5.51
Exon sequences
Seq C1 exon
GGGGGCTCGGGCTGGGGGCGCGGCCTGTGCCGGCCGCCCCACCCTCCTTGCATAAAAGCCGGAGCCCGCGGGGCCGGCGCTCTCAGCCCGTCGGTTCCCGAGCGCCTTCCCGGTGACCCCGCAGTGGGTGTGTGAGGGGAGGACGGACAGACCCAGACGCCGCCGGACCAGGAGGACGCTGACGAGGCACCATGCGTGAGATCGTGCACATCCAGGCGGGCCAGTGCGGCAACCAGATCGGCGCCAAG
Seq A exon
GTGGGCGCGCCGCAGCGGAGGGGGTCCAATGGGGGCGCGAACCTGGGCCGAGAGCCCCTCGGGGTCCCCAGGCGCGGTCCTGGGAAGGCCTGGGGATCGCCAAATGCAGACCTTCCTGGCCGCTTTGTGCCGCCGAGTGTGGCCTGGGCTAGGAGGTGACTTTCGCGGACGGAGGGGGCACCTCTCTTTCTTTCTGCTGTAACTCATTTGGAGTCCCCGTCACCCCCTCGGCCTCCCTCCGCGCTGGCTGCTTGGCAGGCACGCGTGCCTGGAGAAGACGAGGGTGTGTCCGCGAGGCTGTGCGCGGCGCTCCGCGCGAGGGGCTGGGACACCAGGAGGATTAATTGTACTCGCTTGAACCGGAGTCGAGCTGCCGGGGGAGGGGAGGAGAGCGATTGTCTTGCGGTCTCAGGACGTGCTTTGAATCTAAAACCGCGGTCCTTTAGCTCCTTTGCGTTCCTCTTTCCCCGCCCACCCGCTCCTGGCGGGCTGCAGTCCCTGTGCCCTCGCCTCCTGCCGCAGCCTGGGGCTGCGACCAGTGCGCCAAGCTCCGCCACTGCCCGGCTTTGGCTGGTCCTTACCCCCTCGACCCCTACCTCCCCCCGCGAGCGGCAGCTGTTTGCCTGGGAAACGCCCAGTTTCAACTTTCTGAACCTGCAAAATACAAGCCCCGCGGCTGTGCCCGGGTCACGACGCCCTTTAAAGCTTCAAGCTCCTGAAATGTTGGGTTGTCGGAACTGAGTCGGGGACATTTCATTGTGAGCCTTGGCGTTTCTGGGGGCATCGTTCATGGCTAAATGCAGCCTTTCTGTCTCAG
Seq C2 exon
TTTTGGGAGGTCATCAGTGATGAGCATGGGATTGACCCCACTGGCAGTTACCATGGAGACAGTGATTTGCAGCTGGAGAGAATCAATGTTTACTACAATGAAGCCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137285-TUBB2B:NM_178012:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.135
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=PU(7.2=84.2)
A:
NA
C2:
PF0009120=Tubulin=FE(16.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCACCCTCCTTGCATAAAA
R:
CAGTGGCTTCATTGTAGTAAACA
Band lengths:
321-1138
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)