GgaINT0010605 @ galGal4
Intron Retention
Description
NA
Coordinates
chr20:5584119-5585560:-
Coord C1 exon
chr20:5584907-5585560
Coord A exon
chr20:5584313-5584906
Coord C2 exon
chr20:5584119-5584312
Length
594 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
CTATGTTCACTCTTTGCCAGCTG
3' ss Score
6.51
Exon sequences
Seq C1 exon
AGGCCGGGTCGGCTCCGCCGCCTCAGTGCGGGAGCTGCGCTGTTCTGCGCCGATGGCTTCGGGCGCTGCAGAGCCGCTCGCAGCGCTGCTCCCCGCCTCGGGGCCCTCTGAGCGCGGGGTCGGGGCGGCGCTGTGCTGGCGGAGGGCCGCTAACTTTCAGAGGGATGAAGCTCCGTTTCTTTCCTCTGGGCGTTTGAGCGCCGGAAGGCCCGAGTCTGTGCCCGCAGCGTGCCGTGCTGGGGGCTGCGATGTGTGCCGGCGGCTCCGCGGTGGCTTTTCCCCCACCGACAAATATCCCCGCGGGCCCCGAGGTCCCCCTGGTGCCGCCGCCCCCGGAGGCCCCGGCGCGTCTCCCGGCCCTGCAGCAGCCCGGCTCCAAGGCGGGGCCGTCGCTGCTCGCTGCGCTCCCCAACCCGCGCTGTGTGTCTGTCTCCCTCTCCAGCTGAGCTTTGTGGTTGACCATGAACGCCAGCGGCCCCGGCTACCCGTTGGCCTCTCTCTACGTGGGGGACCTCCACCCGGACGTGACCGAAGCCATGCTGTATGAGAAGTTCTCACCTGCGGGGCCCATCCTATCCATCCGGGTGTGTCGGGACGTGGCCTCGCGCCGCTCGCTGGGCTATGCCTACATCAACTTCCAGCAGCCGGCGGATG
Seq A exon
GTGAGCTCTGGAACGCAGCCCCGCAGAGCTGCCCCACGCCCGGGGCTCAGGGCGGTGTGGGAGGAGCTGGGGTGGCAGCTGTTAGGGATGCTGATGCCCTGCACACGCTGGGTTCGGGCTGTCGTTAATCCCAGTCTGGGTTCTCCTGAGGGATGGTGACCCTACGCCTGCTCAGGGACTGGGAGATGGTGCAGTAGTTGGGCTTTGGAATTATATGGGTGAGAGGAAGGGGACTTGCAGGTCTCCCTCTGAGCTCAAGAAGGGCATCCAAACCCCTTCTGCCCTTTGCTGGGCAGCTCGTTGCCCACTGGTTTATACCAAGCAGAAGTAAGGTTCCTCTCCCATTTTCCCTCTGCTGACGTCCCATCTCATCCCGCTGACTGCAGCAGTACTGCACTGAATGGTAGAACTGCCTAAAAGGTGAAGGCTGTTCTGCCAGATGCTTCTGGCAGGAGCTGAAGCTGTCTGCCTCATTTAGCTTAAGGAAGTGCCCAGCAGCGTCTCTGTTTCCTGCACCTGTCTCAGGGGCTGTAGGGCATGGGAAGAGTCTGTCCCTGTGATGGTCCCCTCTCCTCTATGTTCACTCTTTGCCAG
Seq C2 exon
CTGAGCGAGCCCTGGACACCATGAACTTTGAAGTGATCAAGGGCCGACCTGTCCGAATCATGTGGTCCCAGCGAGACCCTGGGCTCAGGAAGTCAGGGGTTGGAAACGTCTTTATCAAGAACCTGGATGACTCCATTGACAATAAAGCCCTGTACGACACATTCTCAGCCTTTGGGAACATCCTGTCCTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004123:ENSGALT00000006565:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(73.2=80.0)
A:
NA
C2:
PF0007617=RRM_1=PD(25.4=27.7),PF0007617=RRM_1=PU(40.6=43.1)
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:
GTGTGTCTGTCTCCCTCTCCA
R:
CGTTTCCAACCCCTGACTTCC
Band lengths:
342-936
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]