GgaINT0125168 @ galGal4
Intron Retention
Gene
ENSGALG00000003830 | NUP214
Description
nucleoporin 214kDa [Source:HGNC Symbol;Acc:HGNC:8064]
Coordinates
chr17:6101091-6103107:+
Coord C1 exon
chr17:6101091-6101538
Coord A exon
chr17:6101539-6102931
Coord C2 exon
chr17:6102932-6103107
Length
1393 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
CACTCTGCTTTCTTCTGCAGGTT
3' ss Score
12.45
Exon sequences
Seq C1 exon
GAAGTACTGTCACAGCTCCGACCACTCCGCCAACTTCTTTAAAGCCTGATGCAGTACCAGCTGTTGCTCCTGCCCCAAGTCAGCCTCCTGCAGGAGATGGAGCAGCTGCTTTTTCCTTTACACCTTCAACTGCAAAGGTGCCTAGCTCTACAGGCAGTGAACTTCCACCCTACCCCTTTGCCACCGATACCTCCAAGCAAGTCCTGGCTCCAAGTCTTACAGGAGCGGCAACATTCTCTTTCTCCTCTGCTTCTCCTAAGGCATCCATAACACCAGCTCCTTCTGTGGGCACTACTGCAGCCACTGCCACATCCTTCTCCTTTGGATCCATTAACTTGAAACCATCTGCAGAAAGTTCACCTGGACTGCCACACTCCACAGCTCCTGCTGCACAGAAGTCATCTTTTGCCCCTTCGGCTTCTTCAGTTAAAGTGAATCTCAATGAGAA
Seq A exon
GTAAGTATAAAGATGCTGTAGTGCAGTGGATGGATAGTTGTTAAATCAGTCCAGGTGTGGACAATGTGTGGTAGTTCTGAACATCACACAATGGTTTCTGGCTTTTTGCCCTGACAGCTGTTCTCTATACTCCCAGAAAAGCTCTGAGGAAGCTCCTCTTTATCTAAGACATATCTGTCTTGGCTGTGAAAACCCTCAGCCCTTCTCATGCTAGAGATGATGTTCATGGTCGGATTATTAGTTGGGAAAGATGCCAGAGTCCTAGTTTTCTCATGCCTTTACTTCATAGGCATGACATAATACAATAATTCCATGTTGTGGTTTGGGATAAGTCATAGTTAAAGACACTTGAGAAACACTGGGACTTGAAAACTCTTGTAGCTGTTTTAGTGTAGTGGTGGTAACACAAGTTTTTTTTCACTGTTTTTGAAGATTCCTTATCTCCAACCTGAAGAGTAATTTGCAGAGCTGGAGGAGGCTGTATCCATTTATCCATAAATCCATTAGATTTCTTTTCCACTGTGTTGGATGGAGGAGATGCCATCCCACATGGTTCTTAACTGGATGCTTGCTCAGTGGACATAGGACCTGAAATCTTCAAAGCTTGTTCATGCTGAGCCATTCATGGCAGCTGAAGTAGAGCTGATACTGTTTATAAACTAGGCAAAATAGATTTGAGTGATGCATATTCTTGGATTTCGTGTACTTATTCTTCCCTCCAACTCCTGAGACTTGCTCCCATTTTCAGAAAGAGCGGTTTGAAACAGAGCTATGTTAATTGGAGCTGCTTTCCATGGAGAGCAATTTTTGTGTAAATGTTTTTAAACAAATTTCTGATCATTCAAATGATTATTTTTTAATGAGAATAATCTTTGCTACACCGAGATCTGATGGTAGCTTTTAGGGCTTCTTGCATTTCATATTTTGTGTATAAAGCAAACGATACGCTTGTGAATTGGCTGAATATTCAACTTCGCTGCCTTGAGGGCCCAAGTTTGAAGATGAATGGAAGTTCAAATTTTCTTGCAGAGTTTCTCTTTTAGCTTTGTTGTAAGGCTGGTACTGAAGGGTGGCTCAGATTTGCTATAGTGGGTGCTTTTGTGCAAAATGAAGAGGTACATTTTGAAACAGGGGAGGACTTCTTGCTGGCGTTTGGTTTTTCCTCTCTGGTGGTCTATGGTAGCAGACTTTACAGGTTCCAAATAGTCCAAAATATCCCTGATGGTACCTTTCCACCATTTCCAAAAGCTACACTTGAAATTTTGGGTCTGGAGCTTAAGTCATTGCTGATCCCAGAGGTTGTTCATTTGTTAGAGCTTAATGGTTTCTTTTAGATGGAGTGAAACAGCTTGGACCAGTTCAGAGCTGAAAACCACTCTGCTTTCTTCTGCAG
Seq C2 exon
GTTCACTGCTGTAGATACTTCATCTCCGACTACCAGCAGCGGTCCTACCAGTTCCACAATGTTTTCATTCTCAACCACTTCAAAAACTGTTTCTGGAGGTCCTCTGAGTCAGCCTGTGACTCTCTCAGCCTCTCCTACCACACCACTGAAGACTTCAACCCCTGCACCTGCTGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003830:ENSGALT00000006070:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.711 A=NA C2=0.983
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:
CAGGAGCGGCAACATTCTCTT
R:
TCACAGGCTGACTCAGAGGAC
Band lengths:
348-1741
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]