GgaINT1020207 @ galGal4
Intron Retention
Gene
ENSGALG00000003830 | NUP214
Description
nucleoporin 214kDa [Source:HGNC Symbol;Acc:HGNC:8064]
Coordinates
chr17:6117005-6120423:+
Coord C1 exon
chr17:6117005-6117078
Coord A exon
chr17:6117079-6118677
Coord C2 exon
chr17:6118678-6120423
Length
1599 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGC
5' ss Score
5.61
3' ss Seq
CCTCTGTCTTCCATTTACAGCCC
3' ss Score
11.59
Exon sequences
Seq C1 exon
GTCTGGGTTTAATTTTGGTGTTGTCACGTCGGCTGCTTCATCACCGACACTGCCCAGCCTTGCTGCCTCACAAG
Seq A exon
GTTAGCTTGAAAGAGTGTGCAAACTGCATCTGTCCTCTGCTAAGAGAATGCTTACTCTTCCTAATTCATGTGGTTCTTGTTTTATGTTGCACTTCTATTATTAAAATTGCAGAAGCTGCAATAACATTGTATACGTGTGCTGGATTATGTCCTGTAATGTAGGAGAATCTAGGTCACCTGCCTTTCAATTAAGAGGAAACAAAATATTTGCTACCATGAACATTCAAGGGGTTCTAGTTTATGAGAAGGGTAATGTATCTGCAGTCATTTCCTGTGTTGTTAATCTGTAGATCTGTAAGTTGCCAAAGTAGTCTGGCATAGGAAGGTGGCATTATGTGGAGTGAGTATTTAAGAATGGGAGTGGAGTAATAGGAGCAGCCTTGTGTTGCTTATAAAACTAACTTGACAGGCTGCCTTTCCATTTCATAGGTAGATCATATTCACCAGGTCTGGGAAGAGGAGCATCTGCTTTATAATTGTCTTGAACTTAATTGACTCTAGTTTCAGCCTTGAAAAAGAGATTGCATGCTCAGAAGTCTTTGTCCTCCTCTCTGTCCCTTGCAACATTATCAGTTGCTCTAATACAAGATAACACCTCTTAGCTTATGTCCTTAAATTATCACAGCCACAGAAATGCTACCAATATTCTGTTGACCTTAAGCAGAAACAACTAGCTTGCCTTAAAACTTGAAGATGAAGTTAATGTAAAAGTTTAGGTAAATAACACAGATTAAAGGAGGAGTGGGAGGTGGTGGAAACAGAATTGTAAGGCACAGCCTTAGCAGGGGCAGTTACCTTTCATTGCTCCATGGAACGGCAGCACTTTTGCCTGTTAGATGATAATGAAAGAACAGAAGGAATTTCAGTGTTCAGGAGGAAACAACTGACAATGAAAAAGGCATCTTTTATTAGTATAGGGTAAAAAACAAGGATAATGCCTTAGTTGTGCTAAGAATCTTTTGCTTAGTTACTTGATCCTCATGCAGATTCCCATACCTTGTCCAAATTGATTAACAGTCCAAACAACAACTCAGTATCATCTAGTCAGAATTTCAGTAGTGCTCTGATGAACTGTCATTTCATTTCAAAGTTGGCTCAGCCCCCGCCTTAAAACTTCAGCAGTTTCACACTGTTGGAGTTGCTTTGCAATTATGTTTAAGAGCTTTTCTCTAGTATTTCAAAGCTGAAAACATCTGCATAAAAACAGCATTCAGTGTTCTATAAATGGTTGAATCTGTAAAGAAAGATTTGATTCTGGAGAAGGTTTTTTCAAGTGCCAGAAAATATGACTTGAGCTCTGCTCTGACCATTGATTTACACAGAGGCAAAAATGGTTAGTTGGAAGCTGGAGCATACATATGTGACAGCATTTGCCACTGTAAACCTGTCCATAAAGGCTTCAGAAAGTGTCACTGTTGTAGTACCCTGAACGTACATGGGAGCACCAGTTTTCTGATGGTTAGCAGGCTTTACAGATTTTAGGCAAAAGCACTCTCTTGCAATCTGCGTAGCACTAAATCATGCTATTGTTGTTTAAAATAAAGAAGTAGAGCTTAGCATATTATAACTCAATTTGTAACCTCTGTCTTCCATTTACAG
Seq C2 exon
CCCCTGCTAAGGAGTCCACTCAACCTGATTCATTTTCGCTTGCTGGGGGTTCCAAATTTGGAGCAGTCCCTGAGAGCTCCTTTGCTTTTGGCTCCCTCAAGCCAGCAAGTGCTTCTGGAGCCGCAGTAGCAAATAGCTCTTCAGCAGATGGCACTCAGTCAAACAAACCTGCTGCAACAATGTCTTCTGCTCCATCCACAGCCTCTGGCAAATTAGATATCCCTCAGTCTAAGCCAGGGGACACCTTGTTTCTGAGCAGTCTGTCCGGGGAAACTCTCGGGAGCTTCTCAGGACTGCGTGTTGGTCAAGCAGATGATAATGCCAAAACCACCACTAAAACACCATCTACCAGTGCTGCAGGAGCACAGTCAACTAAAGCATCTACATCACCTTCTGGGTTTGTCTTTGGTAGCCCCCTGATGTTAGGAAAAGCTGGAGAAGCTACTTCAACATCAGTCACGTCAGCTGGCACGGCACCCACCTCCATCAGCACCAGTGCCACAGGCAGTCTCTTTGGCAATGTTCAGATAACCAACACAGGCTCTCCTGGAGTATTTAATCTCGCAGGCTCTAGTGGAAACAAACTCAACTTTTCTTTTGGTATTCAGCAAGCAAGCAGCATGAGCACGTCCACTTCTGCCCCTTCTGCTCTCCCTGCTTCAACATCTCTCTCGTTCGGGAATCTCTTGAGTCCGTCACAAACTGCTGCCCCGGCTGCAAGTTCTATTAAAGGTGGAGGAGATGCCAAACTGCTGTCTGCTTCAGAAAAGACAGCTGAAAATGAAGCACCTGAGTCTTCACCTCCAACAACGCAGACTCCACAGCCACAGATACAGCTTTCAGAGCCCGTTAAAGAGCCCCCTGCATCCCAGACAGCAGCTGGGGACACCAGCACCGTGGGCTCCAGTACTGCATCAGTAGCACCTCCCCCTGATGCCATTGCTACTCCTGCTTCCACAAGTGAGCTGAAGGCACCAGTGCCTCCTGCTGCCTCAGCCTCTGTCCCACAGGATCAGAGCATCTCAGAGGCGGCCTCTGCAACAACCATTGCCTCTCCAGCAGAAGCAGCGAGCACACTGACTGCTGCCGCTGGTGTTCCTACATGTGTTCAGAGTCCAGCTGTTGGTGCCTCGGTGTTTGTCGCCACCTCTGCAGGCTCCTCAGTGTTCTCTCAGCCTCCAAATTCCAGCTCTTCTGGCTCAGCATTTAGCCAGCCTGCAGGTGATACAACTGCCACTCCTTCCACACCATCTGTTTTTGGCCAACTGCCTGCAGGTACCACAGCATCAGCTCCATTTGGACAACCCACCACTGCCACCGTGACCACACCGACTGCCAGCACAGGGTTTGGTACTTCTGCATTTGGCACCACCACGACTGGGGGCTTTGGTCAGCCAGCCTTTGGCCAAGCACCGACCTTTGGGCAGCCAGCAAGCAGTTCTTCAAGTGGTTTTACCTTCAACCAGTCTGGATTTGGGACAGTGCCTGCCTTTGGCCAGCCAGCAGCTTCCACTGCAGCGTCAAGCAGCGGCAATGTATTTGGAGCATCTTCTAGCACCAACAGTGCAAGCTCCTTCTCCTTCGGACAGCCATCTGCCAGCACTGGGGGCGGGATGTTTGGTCAAAGCAACACTCTCGTGTTTGGGCAAAGCAGCAGCTTTGGGCAAGGGGGATCTGTCTTTGGTAACACCGCCGCTGTGACTACCACTACATCATCTGCTGGGTTCAGCTTCTGCCAGGCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003830:ENSGALT00000006070:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.385 A=NA C2=0.654
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCTTCATCACCGACACTGC
R:
CCAACACGCAGTCCTGAGAAG
Band lengths:
346-1945
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]