GgaINT0125201 @ galGal3
Intron Retention
Gene
ENSGALG00000003830 | NUP214
Description
NA
Coordinates
chr17:6741570-6742498:+
Coord C1 exon
chr17:6741570-6741644
Coord A exon
chr17:6741645-6742386
Coord C2 exon
chr17:6742387-6742498
Length
742 bp
Sequences
Splice sites
5' ss Seq
TATGTTAGT
5' ss Score
-5.46
3' ss Seq
CCTAATGCCGACTTGCACAGGAA
3' ss Score
3.88
Exon sequences
Seq C1 exon
GAAGCAGGTAACACTAAGTATTTCAGAACACTCATACTTTCAAACAACTTTTCATTCAGTCTTAAACATTTCTAT
Seq A exon
GTTAGTTGTCAAGTGGATGTTATCTACATGCCTTGTAGTACTCTCCAAAAGGCTAAAACAGCCTTCTTGAAACACTGAAATTCAGATTCAAAAAGCAAACAAACCCTGCCTTTGTCCCAGGCTGCAGTGCTTCACTCTATAAACCATGTGATAAATACAGCACTGTTGCCTGTGATGTCTTAGTTATGCAGCCTGACTACTACATCAGCAGCTGGTCCTTGAGAATCAGAGGACGAGGCAGTGAGAAGGCTTAAAAAGCATCAGGGGATGAAGGTCTCTGGAGCACCCCATTGCTCATTTTGAAAGATCACAGCATTTTGTAAGACACAATTTTTTTAGTGTTCAGCAATCATGGAAACTTTAATTTTTGTCTTGCTGTGAGTGATCTCCTTTTCAAGGGATGGCAGTGTCCACTTATTCCTGCCTGTACATGCACTCTCTTACCATTCCAATCTTCTAATTTTCAATAAGCTCTGGTCACTGCTATAGCTTCTGCTGTTGCTGGTCTCCCAGGAGTTATAATTGTTTGGTGTGTGGTGTTTGGCTGCTGAGCTGAATGGGGAAGAAACATACAGCAGAAACAAAACAATATGAGAGGATGAGGGACAGCTGAAAGGGTTTTGAATTCTGACTCTCATCAACCCTTCAAGAAAATTTGTCAGAGGGGAAACAAATGTCTAGTTGGAGAAACTGTTCTTGTGCATGTATGCCTGTGTGTCTGACCTAATGCCGACTTGCACAG
Seq C2 exon
GAAATCTGAGTCTGAAGGTTGTGTTAATCATGGGGTTGGAAATTTCAGTGCTTTGAGCTCAAAGTCATTCTTTCGCTTTCTCTTCTTTCCTCCTAGGTCTGGGTTTAATTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003830:ENSGALT00000006070:45
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
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGCAGGTAACACTAAGTATTTCAGA
R:
TTAAACCCAGACCTAGGAGGA
Band lengths:
182-924
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]