GgaINT0124070 @ galGal3
Intron Retention
Gene
ENSGALG00000004088 | FNBP1
Description
NA
Coordinates
chr17:6296362-6297075:-
Coord C1 exon
chr17:6296954-6297075
Coord A exon
chr17:6296499-6296953
Coord C2 exon
chr17:6296362-6296498
Length
455 bp
Sequences
Splice sites
5' ss Seq
GAGGTACAG
5' ss Score
6.62
3' ss Seq
TATTTTCCTCTCTTGAGCAGCCC
3' ss Score
5.87
Exon sequences
Seq C1 exon
GGCTGGCTGGCCGACGTGGAGGGCAGGTTGCCCGCACGGACTGAGCAGGCCCGGCGGCAGAGTGGGCTGTATGAAGCCCAGAACACATCAGCAGTGAACAGCTGTGCACAGGACCGGGAGAG
Seq A exon
GTACAGTATCTGTACAGAGCTGCCTTGTTTGGGCTGATAACTGAACTTGCTTTCTTCAATTGCATCACCAGGAAAACTTGCTCTACAGTATTCAGGACTGTGTGACTAGGCTGAAGGCGGGTGCTCCGTGACAAGAGTTTTGCATCCTAGTTTTAGCCTTGTAGAATATTCCAACTTTAAGAGCTGGTTTTCTAAGTATAATGGCCCCTGCAGTCACTGCTGTGAAGGCACGTGTGATAGGTTCATTTTAGTATTCATTTTATTATGGAGAGAAAAAAGACTATGGCGTTCCAACAGCTGCGAGTGGTAACAGCCTGTCCTGACCATTCTGTGGAATTGCTGAGCTGCTCCAGCTGGAGTTGCTCACCTTGCCTTAAGAGCTCAGTACACAAGCCACCCTCCCTGCTCCTGAGGCTGGTCGCTATAGTTGCTCTGTATTTTCCTCTCTTGAGCAG
Seq C2 exon
CCCGGATGGCAGTTACACAGAAGAGCAAAGTCAGGAGACTGAGATGAAAGTACCCGCAACAGATTTTGATGATGAATTTGATGATGAAGAACCACTACCAACCATAGGAACGTGTAAAGCTCTCTATACGTTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004088:ENSGALT00000006504:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.780 A=NA C2=0.739
Domain overlap (PFAM):
C1:
PF143891=Lzipper-MIP1=PD(10.7=22.0),PF154561=Uds1=PD(11.4=24.4),PF0218511=HR1=PD(0.1=0.0)
A:
NA
C2:
NO
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:
CGACGTGGAGGGCAGGTT
R:
TCAAACGTATAGAGAGCTTTACACGT
Band lengths:
246-701
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]