GgaINT0053524 @ galGal4
Intron Retention
Gene
ENSGALG00000012394 | NID2
Description
nidogen 2 (osteonidogen) [Source:HGNC Symbol;Acc:HGNC:13389]
Coordinates
chr5:57993548-57994153:-
Coord C1 exon
chr5:57993899-57994153
Coord A exon
chr5:57993773-57993898
Coord C2 exon
chr5:57993548-57993772
Length
126 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
GACAGTCACCATTCCTGTGGCAG
3' ss Score
-4.94
Exon sequences
Seq C1 exon
GTGTTTCTCTGCCAGCAGGTTCCTCCCAGCAGCTGACGCCATGTGAGCACGAGCGGCTGTACCCACGGGCAGTGCCACCGGGCCCCTCACCCGTGGGCAACGGACACGTGCCACAGTGTGACGAGCAGGGCAACTATCGGCCCCTGCAGTGCCACGGCAGCACCGGGTATTGCTGGTGCGTGGACGGTGCGGGGCAGGAGATTGCCGGCACCAGGACAGCGCCGGGCAGCACGCCGCTGCGCTGCGGGAACCCAG
Seq A exon
GTGGGTACCACGGGGCCGTCCTCCCCACGGCATCCCAGCCTCATCACTGGAGCACCCAGCAAGGAGCGGCAGCTCCAGCGAAGTCCCTGCACGTGGGCAGGCGGGTGACAGTCACCATTCCTGTGG
Seq C2 exon
CAGAGCCCTCGGAGCGTCCCCCGACCATGTGTGAGCGCTGGCGGCAGAGCCTGCTGGAGCACTACGGAGGCAGCCCCCGTGGCGACCAGTACGTGCCGCAGTGTGATGCACACGGCCACTTCACCCCGCTGCAGTGCCACGGGGACAGCGGGTACTGCTGGTGCGTGGACGAGAGCGGCAGGGAGATCCAAGGCACGCGCTCGGAGCCCGGCAGCCCCCCGCCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012394:ENSGALT00000020241:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.407 A=NA C2=0.434
Domain overlap (PFAM):
C1:
PF0008613=Thyroglobulin_1=WD(100=72.1)
A:
NA
C2:
PF0008613=Thyroglobulin_1=WD(100=86.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGACGAGCAGGGCAACTATC
R:
GTGGCCGTGTGCATCACA
Band lengths:
257-383
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]