RnoINT0066242 @ rn6
Intron Retention
Gene
ENSRNOG00000014493 | Golga1
Description
golgin A1 [Source:RGD Symbol;Acc:1311305]
Coordinates
chr3:23312228-23312881:-
Coord C1 exon
chr3:23312711-23312881
Coord A exon
chr3:23312315-23312710
Coord C2 exon
chr3:23312228-23312314
Length
396 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAG
5' ss Score
8.27
3' ss Seq
AAAAGTGGGTTTTGTTTCAGGCT
3' ss Score
5.37
Exon sequences
Seq C1 exon
AAAATCAAACCTGACAATGAGCTTTTTGAGGTCCGGGAGAAGACAGGCCCTGAGATACCAAATATGGCCCCTTCTGTCACTAATAATACTGACCTAACTGAAGCCCGAGAGATCAACTTTGAATACCTTAAACATGTTGTTTTAAAATTCATGTCCTGTCGAGAATCTGAG
Seq A exon
GTAAAGGCTTCCAAGCTGCTTTTTGGGGATGGGGAGGGGTGGTTGTTCTGCATGGCTTCCCTCTCAGCCCCGTTCTGCCTCTTCCCCTCATCCTTCAGTACTGACCTGCTGAGCAGATGATGATGGGAAGTGGCTCCTGGGAGATGTGGTTCCCCCTCTGAATTCTAGCTTGAATGCTGCTGAAGCTAGAGACATATAAATAGTCTGTCCACCATGAAGAGCAGAGTAGAATGTTCTCTTGGCTCTCAGTCCCCAAAGTGAAGAATGACTCAAAGCTGGAACTGCACCCACCACCTCATCCTTGTGAGCCAAGGAAACAAGACTGCTGACCTTTAGCCCCTTAACTTCCTTCCTACCCCGCAAGGCCTCTGGCAGCAAAAGTGGGTTTTGTTTCAG
Seq C2 exon
GCTTTTCATCTCATAAAAGCAGTGTCAGTGCTGCTGAATTTCTCACAAGAAGAGGAGAATATGCTCAAAGAGACTCTGGAATATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014493:ENSRNOT00000019703:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.421 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0146515=GRIP=PU(46.7=36.8)
A:
NA
C2:
PF0146515=GRIP=PD(48.9=75.9)
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:
AAATCAAACCTGACAATGAGCTT
R:
ATATTCCAGAGTCTCTTTGAGCA
Band lengths:
254-650
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]