DreINT0169759 @ danRer10
Intron Retention
Gene
ENSDARG00000002344 | tubb4b
Description
tubulin, beta 4B class IVb [Source:ZFIN;Acc:ZDB-GENE-030131-8625]
Coordinates
chr14:5554601-5555849:+
Coord C1 exon
chr14:5554601-5554790
Coord A exon
chr14:5554791-5555740
Coord C2 exon
chr14:5555741-5555849
Length
950 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
TTGAATCCATCTTATTTCAGTTC
3' ss Score
7.8
Exon sequences
Seq C1 exon
GAAATGTAGGTGATTTCTCCAGACTGAATAAGTAGGAGCACATCTCGAATTACGACCTCATTGTCGAGGGTTTTGAGTTTGACGGGGCTTTTGCAGTTACGTTTTGTGTTTTCGACCAAGCAAATAAGCAACAATGAGGGAGATCGTGCATTTACAGGCTGGACAGTGCGGCAACCAGATTGGTGCCAAG
Seq A exon
GTAGGAAATGAACAAATTTCATTTTTTATCGTAATCTTGTTAAGATTTAGATTTTTGCGGGAAAAGCTGACGCTAATCCTTGCTTGTTTTAGATCCACACTCGGGAAAATTTAAACTGGTTAATTAATGTTGTGTTTGACTTGACTGTTGTGTTAGTCGTCTTAATATTTATAATAAAAACATGTTTGACTAAACGATATTTGTCTGAATATGATCCTTAATCTCACCCGCAACAAGTTCTTAAACGAATAGCCTTTGAAGTCTATTCCTATCGAAGGAAAATGATTGGGTTACTACAAAAATGTCGATTATTGTAAGAAAGTCATCGTGGTTTGAATGAACTAATGGTGAAACAATGCGTTAGTTTTAGGGTGTTGGCCGCGCCTGACCGGCGTAGAGTCTGATTGGCAAGGGACTCGACTCATCTGAGCTTGTTTGGAAGAGCCGAGTCTCGTTCTACAATTGTTGTCACCAGACTGAAAGGCATCGCTGACTCATTTGAACGGTTTGCTCTCGCCAGTTCGTTTGAGTCGATTTGCTTGAACGAATCACGTGTCGTAATGTGGCCGGTTGTATCTGGTTCAGTGTGCATGGAAAAGTGCGGGAACGCTAATATCATGACGCATGTTTCCCCCTGGCCTCATACATGGACCAAATTCGACTCATGTCGAACTATTGAGCGATATCTTGGGTTAATATTCGAGACAAAAGTGGAACTGTGATTCGTGCGATTTTTCTCTTAGCTCGGGTGGCGTAAAATGGCCCCGGTGACTTGGCAATCTCCATTTTACAAGTGTGGAGCCCACATAACGGGAAGCGCTGGTCATTAAATGTTGGATTAACATTTTTTTTTTACAGAATCTATCACCTTAATTTCTAGATTCGGTTTTCTTTGTGGGTCTTAAGCATTAACATGCATTTATGTTCCTCTTGAATCCATCTTATTTCAG
Seq C2 exon
TTCTGGGAAGTCATTAGTGACGAGCATGGAATTGACCCAACAGGCAGTTACCATGGCGACAGTGACCTTCAGCTGGACCGAATTAATGTTTATTATAATGAAGCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000002344:ENSDART00000041279:1
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=0.068
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAATGTAGGTGATTTCTCCAGACTG
R:
ATAATAAACATTAATTCGGTCCAGCT
Band lengths:
286-1236
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]