RnoINT0066241 @ rn6
Intron Retention
Gene
ENSRNOG00000014493 | Golga1
Description
golgin A1 [Source:RGD Symbol;Acc:1311305]
Coordinates
chr3:23312711-23313507:-
Coord C1 exon
chr3:23313448-23313507
Coord A exon
chr3:23312882-23313447
Coord C2 exon
chr3:23312711-23312881
Length
566 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
ATTCTCCCATTGCTTTTCAGAAA
3' ss Score
9.56
Exon sequences
Seq C1 exon
ATTATGAAGCAAATGCAGCAGAGGATGCTGGAACTTAAGAAGACTCTGCAGAAAGAGCTG
Seq A exon
GTGAGTGCCCTCCACATACAGCCCTACATCACACCCCCAGACCCCTCTACCCTCCCTTGACTCTGGTCCACCCCGGGGTCCTTGGCTGCCTGGTATGCTCTCTTGCTTGATTGCAGAGATCAGGTATGGACTAGTGGAAGTGCCTTAGATCTTGAGAAGTGTTCTTGTGACCATGTGTCCTTGGGCAAAGGTCTGAGTCTGCCTTCTCCATACCTGCCTGTGTTCTCAAAGAGATAGAAAAACATGACCTAGTTCACTCCTCTCAGCCACTCACCCCAAGAGGAGGAGCAGAGCCTTCCTTAGGTTCAGGCACTTGACCTCTAGTCAAGGGCCCTTTTACCCAGTGATGTAAGTTAGTCAAGGAGCGGAGTTGGGGATTTAGCTCAGTGGTAGAGTGTTTGCCTAGCAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCTGAAAAAAAAGAATTAAAAAAAAAAAAAAAGGAGCAATAGATGATCACAGCTGGGACTGGAGACTCCCTGTGATCCTAGACCTAGCTTGAGGGGTGTGACATAGCACATTCTCCCATTGCTTTTCAG
Seq C2 exon
AAAATCAAACCTGACAATGAGCTTTTTGAGGTCCGGGAGAAGACAGGCCCTGAGATACCAAATATGGCCCCTTCTGTCACTAATAATACTGACCTAACTGAAGCCCGAGAGATCAACTTTGAATACCTTAAACATGTTGTTTTAAAATTCATGTCCTGTCGAGAATCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014493:ENSRNOT00000019703:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.100 A=NA C2=0.421
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0146515=GRIP=PU(46.7=36.8)
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:
TTATGAAGCAAATGCAGCAGAGGA
R:
CTCAGATTCTCGACAGGACATGA
Band lengths:
230-796
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]