GgaINT0137488 @ galGal4
Intron Retention
Description
NA
Coordinates
chr23:4312757-4313335:-
Coord C1 exon
chr23:4313185-4313335
Coord A exon
chr23:4312930-4313184
Coord C2 exon
chr23:4312757-4312929
Length
255 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
GCTGTTTTTTCTTCTCTTAGGTT
3' ss Score
10.27
Exon sequences
Seq C1 exon
GGTAAAATGTTCCAGTTTTGTGGGAAGACCTGCTGTGATGAATATAAGAAGAGGAGGAGTGTAACAGCACTGTGTGAATATTGCAGAACTGAGAAGATCATCAAGGAGACAGTGCGAATCGCAGGCATAGATAAGCCATTCTGTAGTGAAG
Seq A exon
GTAAGGAAGAGCAAGGCTGTCTCTCAGAGAAATCAACTCAGAAGAACCTTGCCTTAAAATTATTTGTGATACTAAGGGAAGCCTAATCAACTAGGTTAGAAAAATGGATTTTAGGTTTAGAAACCTGGAACTTCATTCACATTTTAATTTTAATGCCATATTTCAACAAATGATTCCAGAACCAGAAATGCCAAACACACAACAGACTAATATTGAAGGATGCTTTTGTTGTTTTGCTGTTTTTTCTTCTCTTAG
Seq C2 exon
GTTGTAAATTGCTCTATAAACATGACTTGGCTAAGCGCTGGGGAAACCACTGTAAAATGTGCAGTTACTGTTTGCAGACTTCCCCCAAACTGGTCCAGAATCTCTTCGGGGGGAGAATGGAGGAATTCTGCTCAGAAGAGTGCATGTCTAAATTCACAGTTTTGTTTTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002499:ENSGALT00000003942:13
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:
PF064679=zf-FCS=PD(35.0=27.5),PF064679=zf-FCS=PU(85.0=66.7)
A:
NA
C2:
PF064679=zf-FCS=PD(12.5=8.6),PF064679=zf-FCS=WD(100=69.0),PF064679=zf-FCS=PU(2.7=1.7)
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:
GTTCCAGTTTTGTGGGAAGACCT
R:
AGACATGCACTCTTCTGAGCA
Band lengths:
292-547
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]