DreINT0169762 @ danRer10
Intron Retention
Gene
ENSDARG00000098591 | tubb4b
Description
tubulin, beta 4B class IVb [Source:ZFIN;Acc:ZDB-GENE-030131-8625]
Coordinates
chr8:52728441-52729618:-
Coord C1 exon
chr8:52729477-52729618
Coord A exon
chr8:52728550-52729476
Coord C2 exon
chr8:52728441-52728549
Length
927 bp
Sequences
Splice sites
5' ss Seq
AAGGTTGGT
5' ss Score
8.46
3' ss Seq
CATATATACTTTTTCATTAGTTC
3' ss Score
4.33
Exon sequences
Seq C1 exon
TTATATGGGGGAAGTGTCTACTCCCAGCCAGTTGAAGAAAGGAAAAGGTTCGCTGCTTTCTCAAATCCAAATCACTCGAGCTAAAATGAGGGAAATCGTGCATCTTCAAGCTGGACAATGCGGAAACCAGATTGGAGCCAAG
Seq A exon
GTTGGTGTTCATTTAGTACAAATCTGCAGTTGTTGGTTTATTGTGTATTTACATAATGGGAGGTTTATATCAATCAACAATCTACATTTTATTTGAGTTAATTGTAAAAATGAATGCTAAATTAAATTAATTTTGTTTTCAATGTGCTGTATTGTTCGCAGTACAATACGACCCGCCTAAAAATGAGATTCTGAAGTCGTTTGAATGAAATCTAGGTCATCCATGTACTTTCCCATTTGATGTTTATTTTATTCAATTGTAAAACGATTGATATATTTTGTAAAACGACGAAATTTAGCAGTCGTCCGATGGATGTGTAATTTTTGTGCCAGCTGGTCATGCTCACCGGCGTCTGTCTGGAACTTCCCTTTGTCAGATTCACTGCAGTGCGGCAAAAAGGAAGTAGACGTTTAAGCGCGTTTTAAATGCGCCCAAAAACCGGCTTTTGGACTACAATAGTAGTACACAATAAATCGTATGAAACCCAAAACCAAATCTGCTGATTTTGATATCTATGGAATTTTTAGAGATATTTTCGCATCAGCAAATCGATTAGGTTGAAACGCACCGGAAATGGATTTCAGCCAACCGGCGTTCATGGCGCGCGCGCGAATTTTAGGCGGGAGGAGTTTAAAGAAAACGAATTGTTTACGACGTCGACCAGATGTAACCGATATAAATCGTTAATAAAAGCATAATGTGGACACATTTTCTTCATAAAATGTAATGTACGATGCTTATACTTAGTGGTGATAAGAAGTGCGTTTGAGAACATTGTTGTTTTTGTAACATCAAGTATGTTATCATTTGAAAAGCAGTTAAATGACTATAATGTCAGTCCATATGATTTTTTTTGTCTGCTTACTTGATTTTACATTTAATGGTTGTCTGTTTTTTGACACTAATACATATATACTTTTTCATTAG
Seq C2 exon
TTCTGGGAGGTGATCAGTGACGAGCATGGTATTGATCCCACTGGAACATATCATGGAGACAGCGACCTTCAACTCGACAGAATCAATGTCTATTACAACGAGGCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000098591:ENSDART00000168241:1
Average complexity
IR
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
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGGGGAAGTGTCTACTCCC
R:
CTGATGCCTCGTTGTAATAGACA
Band lengths:
247-1174
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]