DreINT0169753 @ danRer10
Intron Retention
Gene
ENSDARG00000053066 | tubb1
Description
tubulin, beta 1 class VI [Source:ZFIN;Acc:ZDB-GENE-110408-5]
Coordinates
chr6:49883211-49884639:+
Coord C1 exon
chr6:49883211-49883339
Coord A exon
chr6:49883340-49884530
Coord C2 exon
chr6:49884531-49884639
Length
1191 bp
Sequences
Splice sites
5' ss Seq
AAGGTGACT
5' ss Score
6.64
3' ss Seq
GTGTTTTTGTGTGTTTGCAGTTT
3' ss Score
9.97
Exon sequences
Seq C1 exon
ACACACACAGTGGGCACCTCGGACTCCTGGTTAAGGCTATTCCTGCTCTTTCAGCAAGCCAAATTTGCCATTATGCGCGAGATTGTTCATCTACAGATCGGACAGTGTGGGAATCAGATCGGCTCAAAG
Seq A exon
GTGACTCAAAACGTTTTGTGTGTTTTTATATGTGTGTTTTTGTTAATTAGTGTTACAGCATTACCATCTCACCCCTGACTTGTTTCACGCTAGATTCTGATGCTGGATTGAGAGAAAAATGGGCATGTATTTATCTAAAGGAAGAATTCATTTGTATTTTGTTTATTCAGTTGGTTATGTCTATATGTAGTGTCATTAATTTATTATTATATTCATTTCTGTAGTCATTTTGAACAGCATTCTGCTTGTGGATAAATACTTAAAGTGTTTCAAGTGTGTTTATTCAATGTTTGATGGATGAATTGTGCAGTTGAAGTCAGAATTATTAGTTCCCCTTTGAATTTTTTTTCGTTTTAAAATATTGTTTAACAGAGCAAGGAAATTTTCACAGTATGTCTGATAATGTTTTTTCTTTTGGAGAAAGTCTTGTTTGTTTCATTTCGGCTTGAATAAAAGCAGTTTAAAATTTTTTAATAACTATTTTAAGGTCAAAATCATTAGTCCCTTTAAGCTACTTTTTCCAATAGTCTCCAGAACAAACCATCAATATATAAAAACTTGCCTAATTCCCCTAACCTGCCTAGTTAACCTAATTAACACAGTTAAGCCTTTAAATGTCACTTTAAGCTATATAGAAGTGTCTTAAAGAATTTAAAATATTATGTACTGTCATCATGACAAAGATAAAATAAATCAGTTATTAGAAATGAGTTATTAAAACTATTATGTTTAGAAATGTGCTGAAAAAATCTGCTCTCCGTTAAACAGAAATTAAGGGAAAAAAAATAAACAGGAGGTCTAATAATTCGGAGGGGCTAATAATTCTGACTTCAACTGTATATATTATAATAATACATATGTAAATTGATGATACGTGCAGTCATAGGGTGTTCACCCCAGCGTGGTCTACTGTAAAGATAAGAGCAGAGGCTCCTCTGATGGGGTGGGCCTACTTTATCATGGATTGAGCTCAGCAGGCTTTGAGTTTCATGCTGTAGGATTGTGGTAAAAACAGAGTAGACTCTGGAAGAACAAGTGCAACTCTCTCAACAGAGAACGCAGGTATTGGTGGTGTTTAAAATGGCAATCAATGTCAATTAAACCAGATTGTCATCCAAGGTTTTATTCAGTGATAATAAATGGGTGAAAATATGCAGACATTTTTCCAAAAGTGTTTTTGTGTGTTTGCAG
Seq C2 exon
TTTTGGGAGGTGATCAGTGATGAACATGGCATTAACAGAGTTGGAGCATACGAGGGCGACATGGACCTTCAGCTGGAGAGAGTCAATGTTTACTTCAATGAAGCACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000053066:ENSDART00000075040:1
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=0.000
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
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCACCTCGGACTCCTGGTTAA
R:
TGTGCTTCATTGAAGTAAACATTGAC
Band lengths:
223-1414
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]