HsaINT0175315 @ hg19
Intron Retention
Gene
ENSG00000137267 | TUBB2A
Description
tubulin, beta 2A class IIa [Source:HGNC Symbol;Acc:12412]
Coordinates
chr6:3153902-3155969:-
Coord C1 exon
chr6:3155859-3155969
Coord A exon
chr6:3155158-3155858
Coord C2 exon
chr6:3153902-3155157
Length
701 bp
Sequences
Splice sites
5' ss Seq
TCGGTATGT
5' ss Score
9.22
3' ss Seq
GTTCACTTTCCCTCTGGCAGGCC
3' ss Score
8.46
Exon sequences
Seq C1 exon
GTAACAAATATGTACCTCGGGCCATCCTGGTGGATCTGGAGCCTGGCACCATGGACTCTGTCAGGTCTGGACCCTTCGGCCAGATCTTCAGACCAGACAACTTCGTGTTCG
Seq A exon
GTATGTAGTCATGATCACTGGGAACTGGCCAAATGACACACCTTCTTCCTAACAGCCCTGCAAAGCACAGTTCTTAGTGTTCAGTGCCAAGGTGACACTGTGTCCACGGCAGCCCTGAGTCCTGGCCTAGCTCCATGCAGTCCATGGGTGGTCATGGCTCACAGATCAACGCCAGCCTGCAGAGGGCTGCTGCAGCCCTCCCATTGCAGAGCAGCCTCAGACTGGAAGGAAGAAAGAGCAAGGAAAAGCTTCAAGCCAGGCTTCATAGGCTATAGGCAACTTGAAAGGACTTCAAAGAGCCAGGGGCCAAAAGCACAGGTTATGACCAGAGCTAGACAGATGCTGAGGCCACCTTCTCTGCTGGTCACACTGCCTTCACCTTGCCTGTTTAATTGTAGTTGAGTATAAAGAGAATGCCTCTTAAAAATGTATGTATTTCAGAACCAATTAAGTTTTCTAACCCTATCCTCTTCCTCAATCAATAGCCTCAGATGAGCTAAACTTACTTCTTACTTTATTATGATCCCCAGTGTTTTTGAGGTCACTGACATAGAAAAATATTTCTTCAGGTAAAAGAAGAGTATTCAAAAGAGAAGAATCTGCCAGTCTAAGACCAGTCCTACCTTCTCCTCCATAGTCAAAATGACAGATTTTGAAATTCCTTATGTTTTAGTGTCTAATGTTCACTTTCCCTCTGGCAG
Seq C2 exon
GCCAGAGTGGAGCCGGGAATAACTGGGCCAAGGGCCACTACACAGAGGGAGCCGAGCTGGTCGACTCGGTCCTGGATGTGGTGAGGAAGGAGTCAGAGAGCTGTGACTGTCTCCAGGGCTTCCAGCTGACCCACTCTCTGGGGGGCGGCACGGGGTCCGGGATGGGCACCCTGCTCATCAGCAAGATCCGGGAAGAGTACCCAGACCGCATCATGAACACCTTCAGCGTCATGCCCTCACCCAAGGTGTCAGACACGGTGGTGGAGCCCTACAACGCCACCCTCTCTGTCCACCAGCTGGTGGAAAACACAGATGAAACCTACTCCATTGATAACGAGGCCCTGTATGACATCTGCTTCCGCACCCTGAAGCTGACCACCCCCACCTACGGGGACCTCAACCACCTGGTGTCGGCCACCATGAGCGGGGTCACCACCTGCCTGCGCTTCCCGGGCCAGCTGAACGCAGACCTGCGCAAGCTGGCGGTGAACATGGTGCCCTTCCCTCGCCTGCACTTCTTCATGCCCGGCTTCGCGCCCCTGACCAGCCGGGGCAGCCAGCAGTACCGGGCGCTCACGGTGCCCGAGCTCACCCAGCAGATGTTCGACTCCAAGAACATGATGGCCGCCTGCGACCCGCGCCACGGCCGCTACCTGACGGTGGCTGCCATCTTCCGGGGCCGCATGTCCATGAAGGAGGTGGACGAGCAGATGCTCAACGTGCAGAACAAGAACAGCAGCTACTTCGTGGAGTGGATCCCCAACAACGTGAAGACGGCCGTGTGCGACATCCCGCCCCGCGGCCTGAAGATGTCGGCCACCTTCATCGGCAACAGCACGGCCATCCAGGAGCTGTTCAAGCGCATCTCCGAGCAGTTCACGGCCATGTTCCGGCGCAAGGCCTTCCTGCACTGGTACACGGGCGAGGGCATGGACGAGATGGAGTTCACCGAGGCCGAGAGCAACATGAACGACCTGGTGTCCGAGTACCAGCAGTACCAGGACGCCACGGCCGACGAACAAGGGGAGTTCGAGGAGGAGGAGGGCGAGGACGAGGCTTAAAAACTTCTCAGATCAATCGTGCATCCTTAGTGAACTTCTGTTGTCCTCAAGCATGGTCTTTCTACTTGTAAACTATGGTGCTCAGTTTTGCCTCTGTTAGAAATTCACACTGTTGATGTAATGATGTGGAACTCCTCTAAAAATTACAGTATTGTCTGTGAAGGTATCTATACTAATAAAAAAGCATGTGTAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137267-TUBB2A:NM_001069:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.102
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=FE(16.7=100)
A:
NA
C2:
PF0009120=Tubulin=PD(59.0=37.0),PF0395312=Tubulin_C=WD(100=34.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCGGCCAGATCTTCAGACCA
R:
TCTGTGTTTTCCACCAGCTGG
Band lengths:
350-1051
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)