GgaINT0053514 @ galGal3
Intron Retention
Gene
ENSGALG00000012394 | NID2
Description
NA
Coordinates
chr5:60689923-60690612:-
Coord C1 exon
chr5:60690380-60690612
Coord A exon
chr5:60690273-60690379
Coord C2 exon
chr5:60689923-60690272
Length
107 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
CTACGTGTGTGTCTGTGCAGGGA
3' ss Score
9.21
Exon sequences
Seq C1 exon
CTCAACACCTTCCAAGCCATTCTAGCCTACAATGAGGAGGAAACGTATGCCATCTTCCTCTACCCCGAGGGTGGCCTCCAGTTCCTGGGCACGCGGCCCAAGGAGTCCTACAACGTGCAGCTGGAGCTGCCAGCCAGGGTGGGCTTCAGCCGTGGGGATGGCGATGATGGGAAGAGAGAGGGGCACTCATACAGCGTGGCCAGCAGCCAGCAGGAACTGCAGCGGCTCGAGCG
Seq A exon
GTGAGTGGGGACGGGGGACAGGGAGCAGCCCCATTCCTTGGAATAAGGGCTTGGGGACCTTCGGTGTGCCCACATCCCCTCCAGTTGCTACGTGTGTGTCTGTGCAG
Seq C2 exon
GGAGAGCAATGTGGGGGTGCCCGGAGTGTGGGTTTTCCGTGTGGGCACCCTGGAGAATGTGGAGCCAGGGGATGTCCCCGGTGCAGCGCTGAGTCCCGCGCCCCATGGCACTGATGACACCTCGGTGCCCACTGAGCTTTTGGCCCAACCTGGCTCAAGGACAACATCGCCGCATCCGCACCCTGCGCTGCTCAGCATCGTCCCTTCAGGGCTGCCCGCGTCCCCCCTGGGGCAGGAATGGAGCCCCAGGCTGCACTCCATTGGGGACGCCCCACAGGGCCACCCCGTGTCCTACAGCTCCGGGCAGCACGGTGTGGGCGTGGAGGAGGACGTGCACTTTAACACAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012394:ENSGALT00000020241:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.436 A=NA C2=0.678
Domain overlap (PFAM):
C1:
PF061199=NIDO=PU(81.1=98.7)
A:
NA
C2:
PF061199=NIDO=PD(17.9=14.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTCCTACAACGTGCAGCTG
R:
GAGGTGTCATCAGTGCCATGG
Band lengths:
254-361
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]