GgaINT0128792 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:4551686-4552195:+
Coord C1 exon
chr18:4551686-4551847
Coord A exon
chr18:4551848-4552087
Coord C2 exon
chr18:4552088-4552195
Length
240 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
AAGTTTCTCTTCCCCTTCAGGAC
3' ss Score
10.1
Exon sequences
Seq C1 exon
AAAGCTTCCATCTGGCGAGGGCAGAGTCTGGGCAGCCTGTACCACCACCTGCAGGGCTGCACCAAGGAGCTGGGCTACCTGACGGAGCGGCAGACCTGCATCCTGAAGCAGGACTGGAGTGACCAGATGACAGACGTGCAGAGCGTGCGGCGGGAGTACGAG
Seq A exon
GTGAGCTCCGGGGATGGCAGCATGTCAGCCCATCCCTGCCATGCCCATGAACCATGCCCCCAGGTGTCACATCTCTGTGGTTCTTGAACACTTCCAGGGATGGCGACTCCACCAATTCCCTCTTCCAACACGCTACCACTCTTTCAGAGAAGAAATCTTCCCTACTATCCAACCTGAATCTCCCCTGGCACAGCTGAAGGCCATCACCTCTCATCCTGTCAAGTTTCTCTTCCCCTTCAG
Seq C2 exon
GACTTCAAGTCCAAAGAGCTGCTCAGCCAGGAGAAGTTCGTCAACAACCTCCAGGACGACGGGGACAGGATGATTGAGCTGAAGCATCCCGCCGTCAAACCCATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002108:ENSGALT00000003290:6
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=0.139
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(13.2=18.5),PF0043516=Spectrin=PU(40.0=77.8)
A:
NA
C2:
PF0043516=Spectrin=FE(33.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGCTTCCATCTGGCGAGG
R:
CTGGATGGGTTTGACGGCG
Band lengths:
270-510
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]