GgaINT0126062 @ galGal3
Intron Retention
Gene
ENSGALG00000004548 | NUP188
Description
NA
Coordinates
chr17:5982850-5983815:+
Coord C1 exon
chr17:5982850-5982924
Coord A exon
chr17:5982925-5983605
Coord C2 exon
chr17:5983606-5983815
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:ENSGALT00000039668:40
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
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
Associated events
Conservation
Rat
(rn6)
No conservation detected
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]