GgaINT0114682 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:174771043-174771917:+
Coord C1 exon
chr1:174771043-174771090
Coord A exon
chr1:174771091-174771755
Coord C2 exon
chr1:174771756-174771917
Length
665 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TATTTTTTTTCCCCTCACAGAGT
3' ss Score
10.42
Exon sequences
Seq C1 exon
TACCATTAGGAGAAAAATTTCCCCGTTTGTGATGTCATTTGGATTCAG
Seq A exon
GTAAAAGACGATGCTTGTAATGATATAGGAAAGGTAGAAGTAGTTCTTTTTGGTTTAAGAACTTGGAGGCTTCTTTTGAGTTTCTGTCTGGGAAGTACTGAATCTACCTACTCCAGCAAAGGGGAGGTTTCTTTGAGAAAGATGTCTTAAACAGATGTCTGCATTGTCCAAGGAGAATGGAAAGCTGAAACTGTAAATGTAATGGCATATATTGACGTAAGAGTTCTTAATGTTGTACTAAGGCCTGTGGCAGCAAGTTGGTCTGCTGCATGCAATCTAGGTGCTAAAAGGTGAGCCATTAAATATGGTTATTTCTCAGGGACTGCTCTTCCTCACGAGTGGAAGGGAAAGTGAGTAAGCTGGAAAGCAGCACTGATGCTTCTGTGCCTTAAAGCACTCAGGTTTGCATCATGCATGGATAGATATGGGTTTATTAGTTAATAACTACTATTGAGTCTAAAAACATACAGTTCCATGTGGATGGTATATTCTGTGCAGATCACTTAAAAATGGAATTTGAACCTTTCAGCTGTTACACAAGCAGGCCTCAATCTGTGTACAAGAGAATCCACACTTGCTAGACCAGATTTGCAGTCTCCAGTTTGTATATACCAGTAATTACTTGCTGTTTCTAAAGCTAACTTGTATTTTTTTTCCCCTCACAG
Seq C2 exon
AGTATTTGGAGTTGTGCTTATCATTGTAGACATCATAGTGGTGATTGTGGATCTGGCCATCAGTGAGAAGAAAAGAGGCATTAGAGAGATTCTTGAAGGTGTTTCCCTGGCTATAGCACTCTTCTTCCTTGTTGATGTTCTCATGAGAGTGTTTGTTGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017031:ENSGALT00000027516:3
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:
NO
A:
NA
C2:
PF0052026=Ion_trans=PU(17.7=36.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCATTAGGAGAAAAATTTCCCCGT
R:
CCTTCAACAAACACTCTCATGAGA
Band lengths:
209-874
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]