GgaINT0124065 @ galGal3
Intron Retention
Gene
ENSGALG00000004088 | FNBP1
Description
NA
Coordinates
chr17:6317240-6318991:-
Coord C1 exon
chr17:6318794-6318991
Coord A exon
chr17:6317423-6318793
Coord C2 exon
chr17:6317240-6317422
Length
1371 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTG
5' ss Score
8.56
3' ss Seq
TCTCCATCTCTTATACGTAGCTT
3' ss Score
6.09
Exon sequences
Seq C1 exon
GATTCACAAATGGTAATAGAAGCCTTTAAATCAGGGTTTGAGCCTCCAGGAGATGTTGACTTTGAGGACTTCACTCAGCCCATGAAGCGGACTGTCTCCGAATCCAGCCTTTCCAACTCCAGAGGGGATGGGAAGTATGAGCCGAAGTTTGGTGGCAAATCCAAGGGCAAGTTATGGCCATTCATCAAGAAAAATAAG
Seq A exon
GTACTGACCTGCAAACATGAGCTTGGTGTTAGCTAGTACACGTGTAGTCAATAGCCACTGTCTTGTGTAGAGATTTGGGCAATTACAGATTTTGAAGAGAGCTTTAGTTTCAGAAAGTTAATGACTGATGTCTTAATATGGTGTTTTTTTGTAGTCTTCGGTTACTTAAGGCTTTCTTTTATATATCTTTGAAGTTTTTTCTTTGTAATTTCTTTAATTATGTTGCAGTTTTTATATTTATTTAATTGTCATGTCTTTGCCATGGTCCATTTCTGTTCCTAACTCAGAAGGAATTGTATACCACTTACTTAGTGTCACGTGTGCTAACTAACATTGTTACTGCTGGGAAGCTTTAACGTGTCATTACTGTTTTGACACTTCTAAAACTCTTTGACTTTTCATTTGTGTGACCTCCTCAGTCTGTGCATTGGGTTCTGCAGTTGGGTGGTGGGAAGCAAGGAATTGCTGCGGTTCTTTCTTCTTTAGCATAACTAATGGAGCACAGCTAACTGAGCAGTTGACTTTTTAAAGACCATGTTAACTTACGTATCCATTAAACCTTTTTCATTTCACTGTCATATTTTACACCATAATGCATGGCACCGTACATCTGAGGATACCAGAATGTGTCAGGATGACTGCACTGTATCAGTTTACAGAAACACTGATGGAAGCCCAGAGCAGCCTCACTGTTTTGATCTTACCCTTGCTCTGACCCTTATCAAGCCACTTTTACTAATGACATTGATAGTCCAAAAGCCTACCTGATCAAAATGGGTCGTTCCTCTTGCTGGTAGAAGAGAGAAGTTGGCTGTCTGGTGCTTGCATTAGTGTAGCCAGAAGCAAAAAAAAAAAAACAAAGACCAACTCCTGAGCAAATTCATAGAATCTGTAGAAGTGAAGTTTGATGCACATTACTGAGGTATGATTTGAAAGCAGGAAGGAATGTGGTTTGTTGTTTTCCAGATAATAGAAACGCTACTGGGCACTAAGGTACCTTCCTTATCTGATCCATTTAAATTCAGGTATTTGAAAGCTCTATCCATTTGCATTATTCCGAGTTGTCCACAGAGCAGAGCAGGGCAGTTTATAGGGATAGCACTGCATGGAAGAGTCTGCATGAGCTTCCCGTCAAATGCTTTGTTACTCTTCTGTTGCATCACTTACTAAAAACTTCAATTTTATCATACCTTCATTTAACACAACTCTAAATACTTCTCCCCCCACTTCTTGAACCATGGCCTTTAATATTTAATTATTTAATTGTTTTTTCTCTGAATTTCAAATATTGGTTTTGATGCTTATTTTCGTTTTGTGTTTTATCTTTTTATTTTGATTTTATTCTGTCACTTCTCCATCTCTTATACGTAG
Seq C2 exon
CTTATGTCCCTTTTAACATCCCCCCATCAGCCCCCTCCTCCTCCCCCTGCCTCTGCCTCACCCTCTGCTGTTCCCAACGGCCCCCAGTCTCCCAAGCAGCAAAAGGAACCCCTCTCCCATCGCTTCAACGAGTTCATGACCTCCAAACCCAAAATCCACTGCTTCAGGAGCCTAAAGCGCGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004088:ENSGALT00000006504:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.652 A=NA C2=0.689
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF122293=PG_binding_4=PU(15.2=24.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGTTTGAGCCTCCAGGAGAT
R:
CGCGCTTTAGGCTCCTGAAG
Band lengths:
346-1717
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]