GgaINT0002112 @ galGal3
Intron Retention
Gene
ENSGALG00000003008 | NCAN
Description
NA
Coordinates
chrUn_random:26551875-26553010:+
Coord C1 exon
chrUn_random:26551875-26552002
Coord A exon
chrUn_random:26552003-26552099
Coord C2 exon
chrUn_random:26552100-26553010
Length
97 bp
Sequences
Splice sites
5' ss Seq
AAGGCAAGC
5' ss Score
2.46
3' ss Seq
TGCGCCGCGCTCTCTTGCAGGGA
3' ss Score
9.98
Exon sequences
Seq C1 exon
GTACCCCATCACACTGTCCCGACCCGGCTGCTATGGGGACCGCAACAGCCTCCCCGGGGTGCGCAGCTACGGCCAGAGGGAGCCCGGCGAGCTGTACGATGTCTACTGCTACGCACGGGAGCTGCAAG
Seq A exon
GCAAGCAGCACTGGGGGATGCGTGGGACATCTCTCGGTGCGCTCGGTGCCGCTGTGGCGATGGGGACGGCCATCCAATGCGCCGCGCTCTCTTGCAG
Seq C2 exon
GGAAGGTGTTCTATGCCACAGCCCCAGGGCGCTTCACCTTATCGGGGGCGCGGAGGCACTGCCGGGGCCGTGGGGCTGCATTGGCCACCACGGGGCAGCTGTACCTGGCCTGGCGTGAGGGCCTGGACCAGTGTGACCCGGGCTGGCTGGCGGATGGCAGCGTGAGGTACCCCATCCTGGCTCCACGTAGGAAGTGTGGCGGGGAGGCGCCGGGCGTCCGGACTCTCTACCGCTTCCCCAACCGCACCGGCTTCCCTCTGCCTGCCTCCAAGTTCGATGCGTACTGCTATAAAGGTAACGAGGATCGGCCTCGGGGCCGCTGCTGTGTGCCAGACAGCGGCTCACCCCCAGTCCCCATCCCTGCAGGGGACGCGGCGGGTGCTCCCGATTCCTCCGCAGAGCAGAGGGAACTGGAGCCGCTGGGCAGTGACAACGTGCTGGTGGAGCATGAGGACATGGCCACCTCCGGGGACAGCCCACGTGCCGGCGTCCTGCCGCAGCTGGGGGCTGCAGGGCCGGATGGTGCCGAGGACGAGCAGTTGCGGTTGGCAAGCAGTGTGACGGCAGCGTGGCGCGGTGACATCCCCGGGGGCAGCAGCATGGCCTCCGCATCCTCCCCGTCCTCATCGGTGCGGCCGCTCGAGGATGAAGCCCTCAATGCGGTGGACCCGGCGCTGCGGGGCTCCCCACGGGAGCTGTTTGGCACCAGCCCAGCACCGGCGCTGCGAGAATTCCCCGACCCCACAGAGCCTCTGTTCACCCTGCATCCACAGACCCAAAGTCAGGCCCCAGGAGGTCACCAGCTTGCCACCAGCAGCCACCGGGCTTTTGGGGGACAGTCCCCCATCGTGGCAGCAGAAACCCCCCGGGCACCCCAAAACAGAGCAGCTACGCCTGGGCTGAATGGGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003008:ENSGALT00000035919:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.655
Domain overlap (PFAM):
C1:
PF0019312=Xlink=PD(38.5=72.5),PF0019312=Xlink=PU(4.3=7.8)
A:
NA
C2:
PF0019312=Xlink=WD(100=31.9)
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:
TACCCCATCACACTGTCCCG
R:
CGATAAGGTGAAGCGCCCTG
Band lengths:
171-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]