GgaINT0020673 @ galGal3
Intron Retention
Gene
ENSGALG00000002722 | E1C8A1_CHICK
Description
NA
Coordinates
chr12:2310032-2310590:+
Coord C1 exon
chr12:2310032-2310138
Coord A exon
chr12:2310139-2310450
Coord C2 exon
chr12:2310451-2310590
Length
312 bp
Sequences
Splice sites
5' ss Seq
GAGGTACTG
5' ss Score
7.67
3' ss Seq
CTGCTGCCCTGTCCCCGCAGGCA
3' ss Score
13.15
Exon sequences
Seq C1 exon
GCCAGCTGTGCTGAACAAGCGCGTGGCCCTGATCTGCCTGCCGCCCGAGCGCTACATTGTGCCTGCTGGCACCACCTGTGAGATTGCTGGCTTTGGGGAAACCAGAG
Seq A exon
GTACTGCTGTGGGCAGCCCCACCACGGTGTCCCACTGCGATGGTGTCCCCTATCTAGGGCAGTCCCTTCCACAGCACCCCCAGGGTCATGGCATCCCCCTGCCCACGTCCACTCATGGCGTCCCCCTACCCATGGCATCTCTTTCCCAAGGCATCTTCTTGCTCATGGAATCCCCTCGCTCCTGGCAACCTCCTGCCCACATCATCCCCTTTCCGTAGCATTTCCCTACCCGTGGCATCCCCCACCCATGCCACTCCCCACCTACCACTTTCCCATGCCCATACATGCCTTGCTGCTGCCCTGTCCCCGCAG
Seq C2 exon
GCACAGCGGATGGCCATGTGCTGAATGTGGCAAAGCTGCCAGTGATGGCACATGCTGAGTGCCAGGCAGCACTGCGTGGGCGCCTGAAGGAGAGCGAGCTGTGCACAGCCCCGCTGCGTGCTGGTGTGGGTGCCTGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002722:ENSGALT00000004292:13
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:
PF0008921=Trypsin=FE(19.5=100)
A:
NA
C2:
PF0008921=Trypsin=FE(24.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAACAAGCGCGTGGCC
R:
TCACAGGCACCCACACCA
Band lengths:
236-548
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]