GgaINT0139185 @ galGal3
Intron Retention
Gene
ENSGALG00000001331 | F1NLW7_CHICK
Description
NA
Coordinates
chr24:1606084-1606518:+
Coord C1 exon
chr24:1606084-1606197
Coord A exon
chr24:1606198-1606389
Coord C2 exon
chr24:1606390-1606518
Length
192 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CTCCCTTTGGCCTTCCACAGCAG
3' ss Score
8.02
Exon sequences
Seq C1 exon
GTTGTGCAAACAACAGCTTCAAGTGCAACAATGGGAAGTGCATCCCCAACACACAGAAGTGTGATGGCAAGGACGACTGCGGGGATGGGAGCGATGAGGGCACCTGCAGCAAAG
Seq A exon
GTGAGGATGGGCTGTGGTGGGGACCTCCCTTGAAATGCAGCTTCTTATGGATGTACTCATGGCTGGGCAGCCTGGAGTGCATTTCTGCCCGCAGTGGCAATGTCCTGGGGTGGGCAGAAGTGGGGAGGGGCTTCTGAGCAGCACAGTTTCCCCAGCACTGGGACTAACCCTTCTCCCTTTGGCCTTCCACAG
Seq C2 exon
CAGCCCAGTCAACAGTTGCCTGCAAGAGCTACACGTACAAATGCCGCAATGGGCTCTGCATCAGCAAGCAGAACCCGGAGTGTGATGGGCAGAAGGACTGCGAAGACAATTCTGATGAGGACAATTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001331:ENSGALT00000002027:13
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:
PF0005713=Ldl_recept_a=WD(100=92.3)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=86.4)
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:
GTTGTGCAAACAACAGCTTCA
R:
TGCAATTGTCCTCATCAGAATTGT
Band lengths:
243-435
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]