GgaINT0140340 @ galGal3
Intron Retention
Gene
ENSGALG00000013234 | HAPLN2
Description
NA
Coordinates
chr25:896296-896852:-
Coord C1 exon
chr25:896667-896852
Coord A exon
chr25:896580-896666
Coord C2 exon
chr25:896296-896579
Length
87 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCT
5' ss Score
8.49
3' ss Seq
TATTTCCCACCTGTCCCTAGGTG
3' ss Score
11.37
Exon sequences
Seq C1 exon
CCTGGATGGAGGGCCTGGACTGGTGCAATGCAGGCTGGGTGCTGGATGGCACCGTGCATTACCCCATCATCAACTCAAGGGAGCCATGCGGCGGCCGCCTCCTGCTGCCAGGCATCCGCAGCTATGGGGCCAAGGACAAGCAGCGGGACCGCTTTGATGCCTTCTGCTTCACCTCTGCACTGCAAG
Seq A exon
GTACCTCCAGCATCCCCCAGCCCTGTGTGGTGACACCGGGGCTGCTCAAGGAGTCATCACCCTCCATTATTTCCCACCTGTCCCTAG
Seq C2 exon
GTGAGGTCTATTTCATCCGAGGCCACCTGAGCTTCAAGGAAGCCGGGCAAGCGTGCCGCAACCACGGTGCTACCATTGCCAAAGTGGGGCAGCTCTACTCTGCATGGAAGTTTTTGGGGCTGGATCGCTGTGATGGAGGGTGGCTGGCAGATGGAAGCGTGCGATACCCCATCACCACCCCCCGGCAGCGCTGCGGGGGTCTGCCAGAGCCTGGTGTCCGCAGCTTTGGCTTCCCCAGGAAGGAGCTGCGGACCTATGGCACCTACTGCTTCGTGGGGACATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013234:ENSGALT00000021612:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0019312=Xlink=PD(58.3=88.9),PF0019312=Xlink=PU(0.1=0.0)
A:
NA
C2:
PF0019312=Xlink=WD(100=95.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCGTGCATTACCCCATCAT
R:
CTTCCTTGAAGCTCAGGTGGC
Band lengths:
179-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]