GgaINT0053514 @ galGal4
Intron Retention
Gene
ENSGALG00000012394 | NID2
Description
nidogen 2 (osteonidogen) [Source:HGNC Symbol;Acc:HGNC:13389]
Coordinates
chr5:57998097-57998786:-
Coord C1 exon
chr5:57998554-57998786
Coord A exon
chr5:57998447-57998553
Coord C2 exon
chr5:57998097-57998446
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:ENSGALT00000020241:3
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]