GgaINT0125178 @ galGal3
Intron Retention
Gene
ENSGALG00000003830 | NUP214
Description
NA
Coordinates
chr17:6734629-6735733:+
Coord C1 exon
chr17:6734629-6734874
Coord A exon
chr17:6734875-6735559
Coord C2 exon
chr17:6735560-6735733
Length
685 bp
Sequences
Splice sites
5' ss Seq
TATGTGAGT
5' ss Score
5.56
3' ss Seq
TGAACTGTAATATTTTTTTGTTT
3' ss Score
-1.34
Exon sequences
Seq C1 exon
CAAGTTTGTCCCGATCTGCCTTCTTGTCCACAAGATACTATGAAGACTTGGATGAAGTCAGTTCAACATCCTCAGTTTCTCAGTCTCTGGAGAATGAGGATCTGCAGGCAGCGGACCAGGAAGAGGAGGCTGCTCCCATCCAAGTCCCTCGTCATGCCCCTGTGGTCCGCACTCCGTCTATCCAGCCTGGTTTGGTGGCTCAGCCTCCATCCTTTGGGAAACAACACCCCTCCTTGGGCACTCTAT
Seq A exon
GTGAGTTGCTTTGCAGTGTTTCTGCTGTTCTGCATGTGTTCCTGTCAGTGTCTTTAACCACTGTATCAATTGCCAGTGCTTCAAATCCTGGAGAAATGAGATTGCAGCAGAGAGATTTACATTGCCAAGTTCCCAGAAGCAGCTAGCAGAGTGGCATTGTAATCTTGTGAACACACTAAACTACCTAAATGCACTAAAGGACCTTGACTCACTGACTGCATTTTGACAGCTTGTTACTTATAGATCATACTGGCCATAGGTGGCACTGTCTTCCTTTAGTAATTTGCCCTATTTCTTAAAATGCTGCCCCTCAAAACAGAAGGCTGAAGTACTTCTGCATTTGGTGGGTGTGCACAAGGTTAGGACTTCTGAGCCCAGAAACAGTAAAAACTAAATTTGCATATACTCAGATTTCCTTGTCTGCAGAGAACTTGAACACCATAAAATGAAAAATAAGCTGTCAGTAGAAGTGACTACAACAACAAACTGAAAGTCTTCTGATGCACTGAAATGACAACTACTGCAATTTACATGCTGAATTCATTGAGTTACTCAAACTGCCTGTGCTAGAAAAGTGTCAACTGTCTTATCAGATGGAAGCTGTATAATTGTAGGAACTGTACTTTGCAAAGGCTTTCAAGTTTTCCTGATTTGAAAAGATACAGTGAACTGTAATATTTTTTTG
Seq C2 exon
TTTCCTGTTTAGTGCCTACATCTTCGAACAGAATCATCCCACAAGGGGCAGACAGCACAATGCTTGCAACAAAGACTGTGAAACATGGGGCCCCTGCTCCCACCGTCACTGTTCCAGCACCCCAGGCAGCTGCTGCGGCAGCCCTGCGGAGGCAGATGGCCACCCAGTCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003830:ENSGALT00000006070:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.675 A=NA C2=0.678
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGATCTGCCTTCTTGTCCAC
R:
TGGAACAGTGACGGTGGGAG
Band lengths:
352-1037
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]