GgaINT0140339 @ galGal3
Intron Retention
Gene
ENSGALG00000013234 | HAPLN2
Description
NA
Coordinates
chr25:896667-897129:-
Coord C1 exon
chr25:897013-897129
Coord A exon
chr25:896853-897012
Coord C2 exon
chr25:896667-896852
Length
160 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCA
5' ss Score
7.87
3' ss Seq
AGGTGCTGCCTGCCCCGCAGCCT
3' ss Score
6.2
Exon sequences
Seq C1 exon
GTGTTGTCTTCCCCTACCAGCCCAGCAATGGGCGCTACAGATTCAACTACCACGAAGCCAAGCGTGCATGCGAGCAGCAGGATGCCCGGCTTGCCACCTACCAGCAGCTCTACAAAG
Seq A exon
GTACCATCCTGCAGCATCTCAAATCCTCCCACTGCCCCAAACCTGCCTTGCTGGCAGCGATGTTGCTGAGATGACCAGGCTCCCTCCCAGGCTGCCATCCCCATCCCTCCCATGCCCCACTTTGTCCCTATGGGATGCTGAGGTGCTGCCTGCCCCGCAG
Seq C2 exon
CCTGGATGGAGGGCCTGGACTGGTGCAATGCAGGCTGGGTGCTGGATGGCACCGTGCATTACCCCATCATCAACTCAAGGGAGCCATGCGGCGGCCGCCTCCTGCTGCCAGGCATCCGCAGCTATGGGGCCAAGGACAAGCAGCGGGACCGCTTTGATGCCTTCTGCTTCACCTCTGCACTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013234:ENSGALT00000021612:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.050 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0019312=Xlink=PU(40.6=97.5)
A:
NA
C2:
PF0019312=Xlink=PD(58.3=88.9),PF0019312=Xlink=PU(0.1=0.0)
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:
TCAACTACCACGAAGCCAAGC
R:
GTGCAGAGGTGAAGCAGAAGG
Band lengths:
255-415
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]