GgaINT0126054 @ galGal3
Intron Retention
Gene
ENSGALG00000004548 | NUP188
Description
NA
Coordinates
chr17:5977945-5978580:+
Coord C1 exon
chr17:5977945-5978030
Coord A exon
chr17:5978031-5978434
Coord C2 exon
chr17:5978435-5978580
Length
404 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGT
5' ss Score
9.65
3' ss Seq
CTCTTCCTTTTTGTTGTCAGCGA
3' ss Score
6.82
Exon sequences
Seq C1 exon
CTTCTAGTTCCCATGTCGGTATCTTGTCTGCAGCTGGGCTCTATGCTGTGTACCCTTCTTCTCATCCTGCTGAGGCAGTGGAAGAG
Seq A exon
GTAGGTATTTTGCATGTATGTTTAATGATCACCGCTGAACATAAGAACTCAGGAGAGTATGTTTGAGTGTTTTCCCTTAGTGATTTGGAGAGAAATCTGATGCCTTATAATGAAGTTTTCTTTTGAGATGGCAAATATCTGTAGTTTGTTGCTGAAAGATCTTATAGCAATACATACATGCTTTGACTTTCTGCTTTCTGGTGAAAAGTGTATGAAGAAAGCTTTTGTGATAGCAAGCCCTGCATTTGCACTGTGCTGTGGCATGTCCTTAGGGAGGCTGAGGCAGTGACTTGTCCAAGTTGCATTGGAAGAACCTAAACCAATGATGCACACAGCTCAGTCGAGCCAGTATATTTACTGAGGGATCTTGTCTAATCTGAAGAGCTCTTCCTTTTTGTTGTCAG
Seq C2 exon
CGAGTTGGGTTCTGTGGATAAAATCATAAACTCCTTGACGCAGATTCTGGAGGGAGTACTACAGGCAGATCAGCAGATGATGGAGAAAACCAAAGCCAAAGTGTTCTCAGCTCTTATCACTGTGCTGCAGATGAAGGAGATGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004548:ENSGALT00000039668:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCTAGTTCCCATGTCGGTATCT
R:
TTCATCTCCTTCATCTGCAGCAC
Band lengths:
230-634
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]