GgaINT0095190 @ galGal3
Intron Retention
Description
NA
Coordinates
chr2:330012-331134:+
Coord C1 exon
chr2:330012-330182
Coord A exon
chr2:330183-330969
Coord C2 exon
chr2:330970-331134
Length
787 bp
Sequences
Splice sites
5' ss Seq
GTGGTGTGT
5' ss Score
3.6
3' ss Seq
CCCTGCTCCATCCCTTCCAGCTG
3' ss Score
9.83
Exon sequences
Seq C1 exon
GAGCCCTCCCCACCTCCGGCAGCTCCCCGTCACCCCTGGCCTGGCCCAGCGGTCCCTCACCCACCTGCTCCCCCAAGCAGTTCTCCTGCGGCACGGGTGAGTGCCTGGCCCTGGAGAAGCGCTGCGACCTGAGCCGTGACTGTGCTGATGGCTCCGATGAGAGCAGCTGTG
Seq A exon
GTGTGTAGGGGGGATGGGGTAGGGATGGGGATGGGATGGAGAGGAGATGAGATGGGGATGGGGATGGAATGAGAATGGGATGAGAACGAGGTGGGGATGGGGATGGAATGGGAATGGGATGAGAACGAGGTGGGGATGGGGATAGGGATAGAGATGGGATGGGGATGAGATGGGCATAGGGATCGGATGGAGATGGGGAGGGGATGGGGATGGAGATGGAGATGACAAAGGGATGGAGATGAGGTTGAGGAGATGGGATGGGATGCGATGGAATGGGATGGGGATGGAGATAAGAATGGGATGGGGTAGGGATAGGTTAGAGATTGGAATGGGGATGGGGTGAGGATAGGAGTAGATGGAATGGGCATGGAGATGGGGACGGGAATGGAATGTGATGGGGGTGGGATGGAGAGGGGATGGGAATAGGATTGGTATAGGATAGGTGGGGATGAAGGTGTTAACAGTGAAGGGAATTGAATGGAATGGGGATGGGTTGGGGATTGGAATGCAGGTGGGATGGAGATGGGGACAGAGACAGGAATGCAGAAGGGATGAGGGACAGGGATGGGGATAGGAATGTGGAGAGGGAGGGAGATGGGGATGGGGAAAGGGCATCCCTTCATCACCAAGTAAAAGGTGCCGGCCAGCTCCAGCCCTTTGCCCCAGTGAGAAAGCTAGGAATCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCTTTCCAAAGGGGACAACTCTGGGCATGGGAAGGCCCCAGGGCAGCCCTCACCCTGCTCCATCCCTTCCAG
Seq C2 exon
CTGACTGCATCCTGTCCCCATGGGGTGGCTGGAGCCAGTGCAGCCACTCCTGCGGGCTGGGGGTGACGTCTCGCCAACGGGTCCTGCTGCGGGGTGCCCTGCCTGGGGGCACCTGCCACACCCCCCGCCTTGATACCCGCGCCTGCTTCCTGCGTGCCTGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000039375:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.138 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005713=Ldl_recept_a=PU(92.5=63.8)
A:
NA
C2:
PF0005713=Ldl_recept_a=PD(5.0=3.6),PF0009014=TSP_1=WD(100=87.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCCTCACCCACCTGCTC
R:
CAGGCACGCAGGAAGCAG
Band lengths:
280-1067
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]