GgaINT1020155 @ galGal4
Intron Retention
Gene
ENSGALG00000004548 | NUP188
Description
nucleoporin NUP188 homolog [Source:RefSeq peptide;Acc:NP_001025861]
Coordinates
chr17:5427459-5428424:+
Coord C1 exon
chr17:5427459-5427533
Coord A exon
chr17:5427534-5428214
Coord C2 exon
chr17:5428215-5428424
Length
681 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TAAGACGCTTTTCTCTACAGACA
3' ss Score
7.7
Exon sequences
Seq C1 exon
GTGAACCTGTGTTACCTGTGTCAGGCCTGTACCTCCCTGCTGCACAGCCGCAAAATGCTCCAGCACTACCTGCAG
Seq A exon
GTGAGGATGGGGACCCTAAGGCTAAAAGCTGGGAGGATTGTGTACTCATGCTCCATGCTGAAAGGCAAATGCTCAGTATCCAGGCTCTGTTCCCAGTGGTGATTACCAGCAATCATCAGTAGCTAGGATTTGCAGCTTTCCGCAGCAAAAATGTCTTCAGATAGTAGTTGAGACTAAAAGCTCTGGACTGTGAAAGGCCAGACCTTGAGGAAGAGCAGCTTGTGCTTGAGTGCTGCTATTATCATTTTAGAGCTGCCTACAAAGCAGCAAGGAAGCTGCACTGCTGTAGTGCTCTCCAGGGCCGTTAAGACACTACTGACCTGGTGTCCTTAATCTGGTTTAATTTGTTTAAGAGATACAGCTCTTGTTCTTGGAGAATCATTTGTTGAGCATGAGGTAGAGATAATGCATGGCTACTGATGTGCTGTTTCAGCATGGCTGAGGCTTGCTGTGTTGATTAGAAGTTCCTTTTCTGGAATGTGAAACCCAAAGATCCTCTGCAGCTGCTTTCCTAGAATGCAGAACCTCCCCTGCTGTACGCTAACTGTAGGTTCTCACGCTTCTAGTAGGTGACAGTTTGTGTGCTTTATTTCCTCCTTTTTGCTTGTAGCAGTTTTCCCTGAAAGCATCATTCTTAATGCGAAACAATCACAAATGTATCTAAGACGCTTTTCTCTACAG
Seq C2 exon
ACAAAAAATGGTGACTCCCTTCCGTCAAGTGTGACTCCACGAGTGCAGCGTAATCCCCAGGCCTCCTCCAAACACCCCAGCCCTGAGTCAGAGGCAGCAGAGCAGAAGGCACTGCTTATGGTGCAGTACAGCCTCTTAAAAATCCTCAGCAAATCTCTTGCTGCGCTGCGCCACTTCACCCCCGACGTCTGCCAGATACTCCTCGATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004548:ENSGALT00000039668:39
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=0.329
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACCTGTGTTACCTGTGTCAGG
R:
TCGAGGAGTATCTGGCAGACG
Band lengths:
279-960
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]