GgaINT0124647 @ galGal3
Intron Retention
Gene
ENSGALG00000003887 | Q5ZHN8_CHICK
Description
NA
Coordinates
chr17:6558305-6558601:+
Coord C1 exon
chr17:6558305-6558370
Coord A exon
chr17:6558371-6558532
Coord C2 exon
chr17:6558533-6558601
Length
162 bp
Sequences
Splice sites
5' ss Seq
AGTGTATCC
5' ss Score
-2.39
3' ss Seq
TCCTTAAGAGGCACTGACAGGCA
3' ss Score
-5.75
Exon sequences
Seq C1 exon
AGAAGGAGATCGGCAGAAGACGAGCTTGCGATGAGGGACTATCTGCAGGAAGGGGACCTCATCAGT
Seq A exon
GTATCCTTCCACTGCTTGTACTCAGACAGAAGAGTTGGGGGGCACGGGGGGAGCAGCCAGACCCTGCCTTTCCCAGGCAGGGAGAGCTCTGTGCTGGGGCAGTTGGTGGCTGTTGGCACAGGGCAGCAGGAGGAAGTCTGTTTCCTTAAGAGGCACTGACAG
Seq C2 exon
GCAGAGGTCCAGTCTGTATTTTCTGATGGGGCTGTATCGCTGCACACCAGGAGTCTGAAATACGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003887:ENSGALT00000039547:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.136 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAGGAGATCGGCAGAAGAC
R:
TCCCGTATTTCAGACTCCTGGT
Band lengths:
133-295
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]