DreINT0169797 @ danRer10
Intron Retention
Gene
ENSDARG00000013079 | tubgcp2
Description
tubulin, gamma complex associated protein 2 [Source:ZFIN;Acc:ZDB-GENE-031118-150]
Coordinates
chr12:9149242-9150725:+
Coord C1 exon
chr12:9149242-9149401
Coord A exon
chr12:9149402-9150517
Coord C2 exon
chr12:9150518-9150725
Length
1116 bp
Sequences
Splice sites
5' ss Seq
TTGGTACGT
5' ss Score
8.11
3' ss Seq
ATTAAGTCTTTTAATTACAGGCA
3' ss Score
4.28
Exon sequences
Seq C1 exon
TCTTCTGAGGTCATCCGTAAAATGCTGAGAGACCGTCATAACAAGAAGAACCCCACTCAGCCCAACCCTGTGTTTCCAAACTGGGTGTATGACCGGCCTTCTCTGATTGGGGATTTCATCACTAACCCCACCCCTGTCGGAGATCCTGTTGTGGCTATTG
Seq A exon
GTACGTGACAAGACTTTCCAAAATCAGAGCCCTGGAAATATAGAAAAATGCTACAAAAGTAAATAAAGTTATTCACTTTGATGATAGATCAAACAATATGGGCACTTTTGATTTCACCTATACTTTAACGGTGAAATGTGTAGTTGTTTTAATGATTCAGAATACATTCTCTTTTCATTAGCCTAACCGATAGCTTGTAATAATGTTTTGTATTCACATGTTTTTAATTCACCCCACAGAGGTAAATGCCAACAAACAAGGAACCGTCGAATCTAGAATGTTCTGAAAATAAATGCGGTCAAATTAATGCGGTAATTAATTAAAAGACCTTTTCAGGGCTAAAAAGACATTTATGTGAAGCCTATCTGGGGTCTGTTCTTCACATGTGGATTACTCATTTAGTTGGATGTATTTATTGACAATTTGACATGATCCAGGATAGCTTCGTTCTTCCAAATTCATCTGGTAGCTCAATCCTGTACGGAAACAGCAGCTCATTTCATATAAATAAGATTACTTGCATAATAAACTTTTATGTAATCTACACTAAAAATAATGGTGTAACTGTCACTGTCACTTCTCCCCAAGGGGCTCAGAGAACATATATTAGTGACTATGTAAGTCTATAGGCTAATTTGAAGATGCATGAAAGTTTTATAGCCTGCAGCTCACAACAAATGTAGAAAGTTATTGCGTATCGGATGTAACAAACCGTTAATTACTAATTTTGTGTAGTTTTGGATAATGGATACTTTGAAGGGCCCTTTGGAATTAAAGATTAAAAGGGGACAACTGATAGACACTTTGGGTTTCCATAAATCTTTTGCATAAGGAAGTTTTTGCACTAATTTCTTCATAGCTGTCACTCTGGAGGGTAAATCCTTCAAAGGTAGTAGGGCATAGGGATGAGTACTTTTGATTTTCACAGTGCATATCTGGTCATCATTAACTAATTAAAATCACCTTGAAAAATGATATATATTTTTTTGTATTAAATGACATTTGTCTCTGAAACAACTTCTTGAAGAAGAAAAAAATGTTGGACAGCATGTGTTTGTTTTTTTTTTGATTGGATTTGATTTTTCCTTTTGATGACATTAAGTCTTTTAATTACAG
Seq C2 exon
GCACAATGCCGCTGGCTGCACAGGAACAAGCTCTGGTTGAGGATCTGCTGTATGTTCTGATTGGTGTGGATGGGAGAGACATCACAGCTCAGCCAGTGCTTGGCAGACAGAGCCGATCGTTCATTGTAGATCCTTCTCTCGATTTGTCCGTCAAAGAGCTGGTCAACAGGATATTACCAGTCGCATCTTGTTACTCCACCATCACCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013079:ENSDART00000020192:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.481 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF041308=Spc97_Spc98=PU(10.6=78.6)
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:
CCGTAAAATGCTGAGAGACCGT
R:
CGGGTGATGGTGGAGTAACAA
Band lengths:
354-1470
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]