GgaINT0053531 @ galGal4
Intron Retention
Gene
ENSGALG00000012394 | NID2
Description
nidogen 2 (osteonidogen) [Source:HGNC Symbol;Acc:HGNC:13389]
Coordinates
chr5:57989689-57990605:-
Coord C1 exon
chr5:57990493-57990605
Coord A exon
chr5:57990413-57990492
Coord C2 exon
chr5:57989689-57990412
Length
80 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAA
5' ss Score
7.3
3' ss Seq
AGCTCAATTTCTCTCTGCAGCAA
3' ss Score
8.46
Exon sequences
Seq C1 exon
TGATGGTGTGATTGCTGTCAATAAAGAAACCGGCTCCTTCACCGACGAGTACCTTCCAGAGCACCGATCGCACCTCTATGGCATCACAGCAGTTTATCCCTACTGCCCTGGAG
Seq A exon
GTAAAACACAAGAAAACCCGACCCCTTTCTCTGGCCTGTTAGAGGGCAGACGAGCTAAAGAGCTCAATTTCTCTCTGCAG
Seq C2 exon
CAAGGAAATAGCAATGACAACTTCACACCTAAAAGGACCTCAGACCCAGCATACTGTCACTGCATACAAGGGAGGGGGAAGCCCTTCACTAAGGCCAATGAAGCAACCTTCCGTCCTGCAAAAGATTATGTGGTTCTGACGTTATACCTCAGGTCTTTACTACTGTATTTTTTTTTTAAAGCGAGAAATATTGATAAGAGAAGAAATGGTCCTGTGAATCCTAAGGCCATTACTCTAACTCTTGCTTATGCAAGCAAATTTCAAGTGTAGTTTTCTTACTCAAATGCTTTACGTTATTGGAAGAAGAATGGGTTGATTTTTAATGGTATGACAATCTGACCATCAGGTCCTTTTATCCAAAAATAAGCACAGAGGGGAAGTTTGGGATGCAGTATCACGTCAGATCTAAGTGACCTACAGCCCTGCAGCCAACCGTGCATGTTCAGAAGTGTGCAGAACAGTTCTGTGATACAGCAAAGGTGCTGAAGCTTTTCCAGAAGACAGTTCTGTATTTTCAACACTGCCTCAATGCATGTCTTTTAGTATTTATATTAGAAGAATATGCTAGAAGAATTGATCTGTTCATGCTTGTTGGTCCCCCAAGTGCCTTCATAGACCTACCCACCATAGACCAATACATGTTCAGAAATACACTAAGTTGTTATGCTTCACTTTTTCTAGGTTATTTCATTAATTGAATAAAATGGTTATGTTTCCTTTTGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012394:ENSGALT00000020241:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
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:
CGATCGCACCTCTATGGCATC
R:
CAGGACGGAAGGTTGCTTCAT
Band lengths:
167-247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]