GgaINT0126066 @ galGal3
Intron Retention
Gene
ENSGALG00000004548 | NUP188
Description
NA
Coordinates
chr17:5985188-5986374:+
Coord C1 exon
chr17:5985188-5985317
Coord A exon
chr17:5985318-5985520
Coord C2 exon
chr17:5985521-5986374
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:ENSGALT00000039668:44
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
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
Associated events
Conservation
Rat
(rn6)
No conservation detected
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]