GgaINT0127639 @ galGal3
Intron Retention
Gene
ENSGALG00000002389 | E1C9G7_CHICK
Description
NA
Coordinates
chr18:4715319-4716141:-
Coord C1 exon
chr18:4715991-4716141
Coord A exon
chr18:4715508-4715990
Coord C2 exon
chr18:4715319-4715507
Length
483 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGT
5' ss Score
7.7
3' ss Seq
CCCTTCCATGTGTGTCCCAGGAG
3' ss Score
8.03
Exon sequences
Seq C1 exon
GATTCCAGGTTTCCACTGGGTGTCCCTGACATCCCCACGAGGTTGGTGTTCTCTGCTCTGGGACCCACCTCGCTGAAGGTGAGCTGGCAGGAGCCGCGCTGCGAGAAGGAGGTGCAGGGCTACAGCGTGCAGTACCAGCTGCTCAATGGAG
Seq A exon
GTCAGTGGGCAAGGAGAGAGGGCTCATCTGGGTGATGGGAGCTTCTGGTGGTGAAGTCCTGGTCAGGTCTTCTCTTGGCAACCTGCTGTAGGTGTTGTTGCTTGGGCTGGGGGCTTGGACCAGATGACTTCCATCACAACCAACATCTTAGTCAAACGTTTTGTCATCATGCTGGATCTGGAAGAAGGATTGGAATATAAGAATGTAATATTTTTACATGAAACTTGGGACGGTTCATCAAAATGTGGTTCTCTTTGGTGCTGAAAATCCCCAAGTTTTCAAGAAGCCATTGCTAGCTCCCAAGCAACATCTGGTCTTGCGCTACATGTTGGGTTGGCAAGGTGTGATGGAGGTGGCTTGAGAGGAAGTTCTCTGGCTCAGTTTTCTGGATAGTTCACTTGAAGTAGGATTTAGGAGAAAGCCACAGCTTTGTCTTTGTGCCTGCAACCCCACACTGATGTCCCCCTTCCATGTGTGTCCCAG
Seq C2 exon
GAGAGGTGCATCGCGTCACCGTATCCAACCCCAGCCGGAACTCGGTGGTTGTGGAGAACCTGCTGCCCAACCACTCCTACATCTTCAAGGTGAAGGCACAGAGTGAGGAGGGCTGGGGCCCTGAGAGGGAAGGAGTCATCACCATAGAGTCCCAGGTGGACCCACAGAGCCCACTGAGCCCCGTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002389:ENSGALT00000003760:35
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=0.445
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(48.8=80.4)
A:
NA
C2:
PF0004116=fn3=PD(50.0=65.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCAGGTTTCCACTGGGTGT
R:
CTGGAACGGGGCTCAGTGG
Band lengths:
338-821
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]