GgaINT0126089 @ galGal3
Intron Retention
Gene
ENSGALG00000008898 | Q6R6I2_CHICK
Description
NA
Coordinates
chr17:1405157-1405636:-
Coord C1 exon
chr17:1405479-1405636
Coord A exon
chr17:1405319-1405478
Coord C2 exon
chr17:1405157-1405318
Length
160 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
GTGTCCTCTTTGGTGTTCAGCAA
3' ss Score
6.22
Exon sequences
Seq C1 exon
CTGCGCAACCCCTCCGATAAGTTCATTTATGCCACGGTGAAGCAGAGCTCAGTGGACATCTACTTCCGACGGCAGGTGGAGCTGAGCACCATGTACCGGCACATGGAGAAACACAACTACGAGAGCGCAGCCGAAGCCATCCAGGCTGTGCGAGACAA
Seq A exon
GTGAGTGGCACCTGCACCTTGCTGGGCTGGGTCTGGGGGGAGCAAGCAGGATGCTGATCCTCATGCATAGGTCTTAACCTAGAGCTGGTAGCCCCCTAACTGCAGTGAATGCAGGCAGGCTGGGCTACCCACCCTAATGCGTGTCCTCTTTGGTGTTCAG
Seq C2 exon
CAAGCTCCACGCCTTCATCTGGGACTCAGCAGTGCTGGAGTTTGAAGCCTCGCAGAAGTGTGACCTGGTGACAACAGGGGAACTTTTCTTCCGCTCCGGCTTCGGGATCGGGATGCGCAAGGACAGCCCATGGAAGCAGAACGTCTCGCTGGCCATCCTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008898:ENSGALT00000040370:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0049715=SBP_bac_3=FE(15.3=100),PF0006021=Lig_chan=FE(19.5=100)
A:
NA
C2:
PF0049715=SBP_bac_3=FE(15.9=100),PF0006021=Lig_chan=FE(20.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCAACCCCTCCGATAAGTTC
R:
GCGGAAGAAAAGTTCCCCTGT
Band lengths:
249-409
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]