GgaINT0053530 @ galGal4
Intron Retention
Gene
ENSGALG00000012394 | NID2
Description
nidogen 2 (osteonidogen) [Source:HGNC Symbol;Acc:HGNC:13389]
Coordinates
chr5:57990493-57991338:-
Coord C1 exon
chr5:57991215-57991338
Coord A exon
chr5:57990606-57991214
Coord C2 exon
chr5:57990493-57990605
Length
609 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGG
5' ss Score
10.38
3' ss Seq
CAGTTTTCCTCTCTCCACAGTGA
3' ss Score
9.82
Exon sequences
Seq C1 exon
GCACGAAGAAGCTGGAGTGCACGTTCCCTGACGGAGCAGGCAGGCGCATCATACACAACAACCTCAACTACCCCTTCAGCATCATTAGTTACGCCAGTCACTTCTACCACACCGACTGGAGACG
Seq A exon
GTAAGGGGGGAAAACCCACTCCAGCAGGGGAAAACAAGTGCTGCCACGGGCCTGAAACCTCACCAGAATCCTGGCCTCAGCCCTCTGCAGCGCCATGCTGGGCAGCAGCTGCTTGTAAAGCTTCCTTATTGCACAGAACAAACAGTTGTTTAGAAACAACTCCATCTTCCTGGGAGGGAAAGAAATACTGTGGTTGTTTTTTTTTTTTCTAACTAGAACTTGGCCCAAGGGTTTGAATCCAGATTAAGTGAAAGAAAAGATGCTGTCCTCAGTTGTTCCCTCTCCCCACCACCAAAGGCATCGGGGTCATCAGGACCTCGCCTCTATTCCCGCTCCAGCTGGAAGCTCTCAAACTTCAGTCACATCTTAGCAGATTATAACAAACACTTAAGTGCTGGCCACACTTGGACGAGGCTCTCGGGGAGATAATCTCTCCTTGGAAGGCTGGCTCTGTGATTCTGCAGCAGCAGCGTGCTGAGGGAGCTGCACACGGAAGCCGTGGGGCATGTTTCTTTTGATTTGTTCTGCAGGTGTTCAGCCCTCTCTTTGTAGCTGCCTCCGTCCTTAACTGCACCTAGATGGGATATAACAGTTTTCCTCTCTCCACAG
Seq C2 exon
TGATGGTGTGATTGCTGTCAATAAAGAAACCGGCTCCTTCACCGACGAGTACCTTCCAGAGCACCGATCGCACCTCTATGGCATCACAGCAGTTTATCCCTACTGCCCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012394:ENSGALT00000020241:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
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
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGAAGCTGGAGTGCACGTTC
R:
TCCAGGGCAGTAGGGATAAACT
Band lengths:
231-840
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]