GgaINT0139182 @ galGal3
Intron Retention
Gene
ENSGALG00000001331 | F1NLW7_CHICK
Description
NA
Coordinates
chr24:1604479-1605002:+
Coord C1 exon
chr24:1604479-1604609
Coord A exon
chr24:1604610-1604897
Coord C2 exon
chr24:1604898-1605002
Length
288 bp
Sequences
Splice sites
5' ss Seq
ATCGTGAGT
5' ss Score
8.88
3' ss Seq
TTGCTTCTCCTCCTTCCCAGCCT
3' ss Score
7.66
Exon sequences
Seq C1 exon
GTACTGTGGGGAACGTTCCCAGTTTGTGGTGGCCAGCAGCACCAACAGGATAGCAGTGCAGTTCCACTCTGACCGTTCCTACACAGACACTGGTTTCTCTGCAGAGTACCTGTCCTACGACTCCAGCGATC
Seq A exon
GTGAGTTGAAGCCTGGAGACTGTGGGTGGGCACTGGAGGTGTTCTGCAATAACTGGAGGCTCTCCCTCTTCTACATTTCTTCTATCTTCCTGTAAATTGGGAAGCATGCTTTTCTGGGGGATAGGAGCACGTCTTGTTTTCCTGCAGATCTCATTGTAGTTCTCTGTTCTGAGAAAAAGCTGTTTTTTACGTTGAATGCTGCAAGGAGGAAGCTCAGAGCACTGGGGATGTACTGCAGAGGGGACAGCTGGAGGGCTCACTTGTTGTTTTGCTTCTCCTCCTTCCCAG
Seq C2 exon
CCTGTCCTGGCAAGTTTGCCTGCAACACCGGCCGCTGCATTGAGAAAAGCATGCGCTGCGATGGGTGGTTGGACTGCGTTGATGGCAGTGATGAGCGGTCCTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001331:ENSGALT00000002027:10
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:
PF0043115=CUB=PD(34.3=80.0),PF0005713=Ldl_recept_a=PU(2.8=2.2)
A:
NA
C2:
PF0005713=Ldl_recept_a=PD(94.4=94.4),PF0005713=Ldl_recept_a=PU(0.1=0.0)
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:
GGAACGTTCCCAGTTTGTGGT
R:
CCGCTCATCACTGCCATCAAC
Band lengths:
220-508
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]