GgaINT0140338 @ galGal3
Intron Retention
Gene
ENSGALG00000013234 | HAPLN2
Description
NA
Coordinates
chr25:897013-897953:-
Coord C1 exon
chr25:897614-897953
Coord A exon
chr25:897130-897613
Coord C2 exon
chr25:897013-897129
Length
484 bp
Sequences
Splice sites
5' ss Seq
AGGGNAAGG
5' ss Score
0
3' ss Seq
CCTCTGTCCCTGTCCTCCAGGTG
3' ss Score
12.55
Exon sequences
Seq C1 exon
CTGCAGTACCTGCTGGAGCCCCTGCACACCGCAGTGCACACGCAGCGAGGTGCCACAGCCACGCTGCCCTGCGTGCTGCGCGCCCTGCCCCGCAACTACCGGGTGAAGTGGAGCAAGGTGGAGCCAGCCAACTATGGGGAAAGCGTTATCATCATCACCAACGGGCTGTACCATAAGAACTATGGGCCGCTGAGCCCCCGCGTGCGCCTGCGGCACAGCCACCGCTACGACGCCTCGCTCACCATCACCAACGTGGCCNNGGAGGAAGAGGGACGCNACCGCNGCCAGCNGGNCAACGGGCNGGAGGACGAGAGCGNCNCGCNCACGCNGCACCNGGAGG
Seq A exon
GNAAGGGAAGNAGGGAAGGGGGGGAGGCNCNAANGGGNCCCCANCGCAAAGCCGCGGGCCCCAGACNCCNGCNCAGCACCAGGNCCCGGGGACAAGGAGCCAAACCNCCAGGGNGAGAACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCTCCATCCCTCTGTCCCTGTCCTCCAG
Seq C2 exon
GTGTTGTCTTCCCCTACCAGCCCAGCAATGGGCGCTACAGATTCAACTACCACGAAGCCAAGCGTGCATGCGAGCAGCAGGATGCCCGGCTTGCCACCTACCAGCAGCTCTACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013234:ENSGALT00000021612:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.246 A=NA C2=0.050
Domain overlap (PFAM):
C1:
PF0768612=V-set=WD(100=92.1),PF0019312=Xlink=PU(0.1=0.0)
A:
NA
C2:
PF0019312=Xlink=PU(40.6=97.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGAAGTGGAGCAAGGTGGAG
R:
TGTAGAGCTGCTGGTAGGTGG
Band lengths:
352-836
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]