GgaINT0125641 @ galGal3
Intron Retention
Gene
ENSGALG00000004622 | C9orf114
Description
NA
Coordinates
chr17:5909745-5910372:-
Coord C1 exon
chr17:5910242-5910372
Coord A exon
chr17:5909818-5910241
Coord C2 exon
chr17:5909745-5909817
Length
424 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
GCTGGTGACTGTCTCTGCAGGAG
3' ss Score
6.88
Exon sequences
Seq C1 exon
GGCTCCTCAACCCACTGGACAGCCCCCACCACATGCGGGTGGATGAGGATTCTGAGTACCGAGAAGGTGTGGTGTTAGATCGGCCAAGCAAGCCAGGCAGAGGCTCATTTGTCAACTGTGGGATGAAGAAG
Seq A exon
GTATGGCAGCGTGTAGCCTGCAGATCCCAAAACAACTTACCCTGGCCCTCTGTCCTGTTTGAAACAGGTGCAGTGGGTTACAGGTACTGCTGGATTTCTGAGCATCCTGCTTCATAGAAGGCTGGGATGGGGTTTAACGCTGTTGCTGCCTTGTTCATGGCTGTTACGGGTTGTTCATGGCTTCCCCAGTCCTGGCAGGCCCATTCCAGCATGTTACTGCTTTGTGCTGGGTTTGAACCTCTGAGCAGCAAAATAAGCCTCAGGCTGATGACCCAACCACTGTGAACTTGCTCAGCACAGACCCTGATTGCAGAGCTCCTCATTCCAGCTCAGCTCTAGGCCAGAATAGTCCCCACCCTTTCTTCTCCCAACCTTCCTCAGTACCTCCAGGCTCTCCTAACACTGCTGGTGACTGTCTCTGCAG
Seq C2 exon
GAGGTACAGATTGACAAACAGCTGAAGCCTGGTCTGCGTGTCACTGTGCGCCTGCAGGAACCACAGAATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004622:ENSGALT00000007359:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.205 A=NA C2=0.440
Domain overlap (PFAM):
C1:
PF0259812=Methyltrn_RNA_3=FE(14.7=100)
A:
NA
C2:
PF0259812=Methyltrn_RNA_3=FE(8.2=100)
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:
CTCCTCAACCCACTGGACAGC
R:
GGATTCTGTGGTTCCTGCAGG
Band lengths:
200-624
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]