DreINT0169801 @ danRer10
Intron Retention
Gene
ENSDARG00000013079 | tubgcp2
Description
tubulin, gamma complex associated protein 2 [Source:ZFIN;Acc:ZDB-GENE-031118-150]
Coordinates
chr12:9157497-9158006:+
Coord C1 exon
chr12:9157497-9157642
Coord A exon
chr12:9157643-9157825
Coord C2 exon
chr12:9157826-9158006
Length
183 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGG
5' ss Score
10.17
3' ss Seq
TGATGACTTTCTCATTTCAGGCA
3' ss Score
8.8
Exon sequences
Seq C1 exon
TGAATTCATGGTTGAGGAACATGAGCTGCAGAAAGAGAAGATTCAGGAGGATTATAATGACAAATACTGGGATCAAAGATACACTATCGTCCAGCACAGAATCCCATCATTCCTTCAGAAGATGGCAGATAAGATATTAAACACGG
Seq A exon
GTAAGGAGGCATCTATTAAACATTAATGTAAAACAGCTATATTTTAATGCACCAGTAGAATGCAGCTGCCTCTGCAGAGGTTAAACAGCATTAGATTTAAACACAGTGGGAAGAGTTACTGCATTGCCATGTATCATGAAAGAATGAGGTGGGTATATAGATGTGATGACTTTCTCATTTCAG
Seq C2 exon
GCAAGTATCTGAATGTTGTGCGAGAGTGCGGTCGTGATGTAACCTGTCCAGACGCCAAAGAGGTTCTCTACACGCTTAAAGAGAGAGCGTATGTGGAGCAGATCGAAAAAGCATATTACTATGCCAGTAAGGTTCTGCTTGACTTCCTGATGGAGGAAAAGGAGCTTGTTTCACGCTTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013079:ENSDART00000020192:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF041308=Spc97_Spc98=FE(9.4=100)
A:
NA
C2:
PF041308=Spc97_Spc98=FE(11.6=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:
GGTTGAGGAACATGAGCTGCA
R:
CGATCTGCTCCACATACGCTC
Band lengths:
242-425
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]