GgaINT0144390 @ galGal3
Intron Retention
Gene
ENSGALG00000000458 | F1NP62_CHICK
Description
NA
Coordinates
chr28:608927-609848:+
Coord C1 exon
chr28:608927-609284
Coord A exon
chr28:609285-609704
Coord C2 exon
chr28:609705-609848
Length
420 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TATGCTTGTGGTTATTTAAAACC
3' ss Score
-5.45
Exon sequences
Seq C1 exon
GGAGATTCAGGAGGGCCCTTGGCCTGCGAGGTCACCCCGGGCGTGTTTTATCTGGCTGGCATCGTGAGCTGGGGAATTGGATGTGCCCAGGCCAAGAAACCTGGCGTGTACTCCAGAATTACCAAACTCAACGACTGGATCCTGGATACCATCTCGCAGTTTCCCGGTCCCAGCACAGGCGCTCCTTCCACTTCAGCCACCGCCAGAACTACTGCAGATATCCTCACGCTCCGTCCCAGCACAACAGCTACAGGTCCCATCAGTGAAACCACCCCGAGTGAGAAGGCTGCCACCACCGTGCAAGAAACCTCCACAGCTCTGAAATCCACTGAGCCTGCCAAGCCCACCCAGGCCCCAG
Seq A exon
GTAAAAGTCCAGTAACGGCCAATTCATTGAGACCTCCAGCCCTGGCACAGAGGGCGCTGAGTTGGGTTGTTGTCTTCCAGTGGTGCCTTGTACCAGCCTCACCTTCAGGTGCTCCAGCAACATCTGTATTGGAAAAGAAAATCCCGAATGCGACGGAGTTGTTGACTGCAGCAATGGCTTTGATGAGAGCAATTGTGGTAAGCACTGCTTTGCAGCCTCCTGCCCAGTCTGCCACGAGGAGCTGGCACGCCAGCTCTGCACAGCACCACAGCTTGCCATCTGAGCGCCATGACTGGGGCTGCACACCCCCTGCTGTGTGACAGCTGGGTCACACATCCCCATGTGTGGTAATGAGTTCCCAGTTGTGTCGCACTGCAGGGGATAGGGAAGGAATATCCCTTATGCTTGTGGTTATTTAAA
Seq C2 exon
ACCACGGTGCCTCTTCCTCTGTCCCAGACTGCGGCTTAACCACTGCTCTGGCCTTCAGCAAGATCGTGGGTGGGAGCTCTGCAGCTCGAGGAGAATGGCCCTGGCAAGTCAGTCTCTGGCTACGGCAGAAGGAGCACAAGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000458:ENSGALT00000000620:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.483 A=NA C2=0.122
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PD(20.2=38.3)
A:
NA
C2:
PF0008921=Trypsin=PU(0.7=2.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCAACGACTGGATCCTGGA
R:
TAGCCAGAGACTGACTTGCCA
Band lengths:
355-775
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]