GgaINT1020160 @ galGal4
Intron Retention
Gene
ENSGALG00000004548 | NUP188
Description
nucleoporin NUP188 homolog [Source:RefSeq peptide;Acc:NP_001025861]
Coordinates
chr17:5429797-5430983:+
Coord C1 exon
chr17:5429797-5429926
Coord A exon
chr17:5429927-5430129
Coord C2 exon
chr17:5430130-5430983
Length
203 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGC
5' ss Score
8.69
3' ss Seq
ATCGTATCTTTTCATTTCAGAGT
3' ss Score
8.27
Exon sequences
Seq C1 exon
GTCTCTGCTCATGTTTACAATGGAAAACTGTTTCTACCTGCTCATCTCCCAGGCCGTGCGGTACTTGAGAGACCCAGCTGTGCATCCTCGCGATAAGCAGCGGATGAAACAGGAGCTCAGCTCTGAGCTG
Seq A exon
GTAAGCAGCTTGTACCATTCTTTCTCACTGTTCATTGTAAGTGTGTTTTGTGGGTAAAGGTCCCACATCTGCCTGGTACAGCCCATTCCCCTGCATGAGTTAACAGCCTTGGCTATCTGTTTCTGTGCCACCGGCACCTCGTTTTGGGAGGGTGAGGCATATGTGCTTGGAAGAAACTAACTCATCGTATCTTTTCATTTCAG
Seq C2 exon
AGTACGCTGCTTTCCAGCTTGTCTCGTTATTTCCGCCGTGGTGGTCCCTCCTCACCTGCCAGTGGGGTTCTTCCCTCTCCCCAGGGAAAGTCTGCCTCCAAACTGGGGCCTGAGGGGCAGGAGCCTTTGTTTCAGCTCGTTCAGGCCTTTGTCCGGCATGTGCAGAGATAGATGCTGTTCTGCCACAGCCTCTCTTTCCAGGACTTGCACCAGAACGATTCGTGTCCACCACAGAAAGCATCACCCTTGGCAGAGCTTGTAACAAGGACTGGGGCAGGGAGGGAGGCCTGGTCTGGGCAGCGATGGATACCGAGCTGTAACAGCAGCAGCGAGGTCCTGTTGAACTCTTGCAGCGCAGTGAATGTAAGGAGAGCTGCGAGGGGCTCCTCAGATTGACCAGTGCACAGCCTGCCTGCTCCATCTGCTAGAGCATCTTGGCTAGGTACAAGTGCTGAACAGTCAAAACCTTTATTTTTATAGCTTGTACCTCAGCTGGGGAAGCCCTGGCTGATGGAGAGAGAGGACAGACTCTCTTCTGGGCATTAACTCTGCTCTTAACACAAGGTGCAGTCTGCCTCTCCCTCCCAGTCAGAGTCCAGTTAAGGCACAACCTAGGGATCAGCCAGCAATTCAGAGACCATCTTTCTACTCCTATTTTTGTACTGAGTGGTTCAAGGCAAGATGGTGTATGTGTGCTCACGCCTCCCCTCCACCCTGCAGTCTGTGTGTTGTGTGTGTTTCTGAAGAGCAAGGCCTCACTCAAGGTTTTTAAGTCAAAATTCCATTGCTCTAGTCTTGCAATTTTTTTGTAACTGTGGCCTATTTATACTGATATTAAAACCTTTATAGACAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004548:ENSGALT00000039668:43
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.375
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:
CGGTACTTGAGAGACCCAGCT
R:
ACACGAATCGTTCTGGTGCAA
Band lengths:
297-500
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]