DreINT0169764 @ danRer10
Intron Retention
Gene
ENSDARG00000098591 | tubb4b
Description
tubulin, beta 4B class IVb [Source:ZFIN;Acc:ZDB-GENE-030131-8625]
Coordinates
chr8:52726939-52728336:-
Coord C1 exon
chr8:52728226-52728336
Coord A exon
chr8:52728145-52728225
Coord C2 exon
chr8:52726939-52728144
Length
81 bp
Sequences
Splice sites
5' ss Seq
TTGGTGGGT
5' ss Score
4.3
3' ss Seq
TTTTCATTCATTTGGACCAGGTC
3' ss Score
7.61
Exon sequences
Seq C1 exon
GAGGTAAATATGTGCCCCGTGCTGTGTTGGTGGATCTGGAGCCTGGTACTATGGACTCTGTGAGGTCCGGACCCTTCGGTCAGGTTTTCAGACCAGATAACTTTGTTTTTG
Seq A exon
GTGGGTTTTCATTTTAAATAACTAATTGATTTATTTATTGTACAAATTTGAAAATTAAGAATTTTCATTCATTTGGACCAG
Seq C2 exon
GTCAGAGTGGTGCTGGAAACAACTGGGCTAAAGGCCACTACACAGAGGGAGCAGAGCTGGTGGACTCTGTCCTGGATGTGGTTCGCAAAGAGGCAGAGAGCTGCGATTGCCTGCAGGGCTTCCAGCTCACCCACTCCCTGGGTGGAGGAACGGGCTCTGGTATGGGCACCCTCCTCATTAGCAAGATCCGTGAGGAGTATCCCGACCGCATCATGAACACCTTCAGCGTGGTGCCCTCACCCAAAGTGTCTGACACTGTGGTGGAGCCCTACAACGCCACATTGTCGGTTCACCAGCTGGTTGAAAACACAGACGAGACCTACTGCATTGACAACGAGGCTCTTTATGACATCTGCTTCCGCACACTCAAACTCACCACACCGTCATACGGTGATCTCAACCATCTCGTATCTGCCACCATGAGTGGTGTGACCACCTGCCTCAGGTTCCCCGGCCAGCTCAATGCCGATCTCCGCAAACTGGCCGTCAACATGGTGCCCTTCCCCCGTCTCCACTTCTTCATGCCCGGCTTCGCTCCTCTGACCAGCAGGGGGAGCCAGCAGTACCGCTCTCTAACCGTACCCGAGCTCACACAGCAGATGTTTGATGCTAAAAACATGATGGCTGCGTGCGACCCGCGTCACGGCCGCTACCTCACAGTCGCCGCCATCTTCCGTGGCCGCATGTCTATGAAGGAGGTCGACGAGCAGATGCTCAATGTTCAAAACAAGAACAGCAGCTACTTTGTGGAATGGATCCCAAATAACGTCAAGACCGCCGTTTGCGACATCCCGCCTCGTGGTCTGAAAATGGCCGCCACCTTCATCGGAAACAGCACTGCCATCCAGGAGCTCTTCAAGCGCATCTCCGAGCAGTTCACGGCTATGTTCAGGCGCAAGGCTTTCCTGCATTGGTACACAGGCGAAGGTATGGATGAGATGGAGTTCACCGAGGCAGAGAGCAACATGAACGACCTGGTGTCTGAGTACCAGCAGTACCAGGACGCCACCGCCGAGGAGGAGGGCGAGTTTGAGGAGGAGGGAGAGGAAGAGCTGGCTTAAATCGCATTAATATACGTGTCGTTTTCCAGGCTGTATCATTTTGCTCATGTAAAAGGAAAATAAACCTTCCAAAGTCCTGTTTTTTTGTTCTATTCCTCCTCATGTTTGTACAGATGTCAATAAAAGGCTTTTTCTTCTGTTAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000098591:ENSDART00000168241:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.099
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGATCTGGAGCCTGGTACT
R:
CTTTGCGAACCACATCCAGGA
Band lengths:
172-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]