GgaINT0125428 @ galGal3
Intron Retention
Gene
ENSGALG00000003175 | C9orf96
Description
NA
Coordinates
chr17:7572333-7572911:+
Coord C1 exon
chr17:7572333-7572470
Coord A exon
chr17:7572471-7572831
Coord C2 exon
chr17:7572832-7572911
Length
361 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
CCTTTTCATTTATGTTCTAGAGG
3' ss Score
8.83
Exon sequences
Seq C1 exon
AAATAGCAGCTTTGAGATTTATAACGGATTCAAAAGGCAGTGGAATAAACCTGATCAAAGATGCCTACCGCTTCTACTGTGATGATCCACAAGTGGTGGAAAGTATCTGTGTGCTGATTAATGAGATGGTTCAGTATG
Seq A exon
GTAAGACTATGGTGTCATTTGTTCAGTCTCTTTCCCCCCCCCCTCAACCCCCCCATGCTCACCCCCAGAAAAGAACAAACAGTGAAGAAGCAGTAGCTACTCAGGTAAATTGAAATTGCTCTCTGGAAAGACTTACTATATACATGAGAAGGGAAGAATTATTGGAATTGTAATTATTCAACAACAAGAAAGAATGGGATTAATTCACAAATGCCTTTGTAATGTACAGATGTTCTAACTTCATCTTATCTTGCATTCTATTTGTATAGATCTATTTCCTTTCTGCTCCTCTTTAGTCCCTGCTAAAACCACTGGAAATTATACTAGTAATTGTAAATTATCCTTTTCATTTATGTTCTAG
Seq C2 exon
AGGACGTTATGCTGGATATGTTGTCACAGCAAATGGAAGAGTTGCTGTCTGAAATAAAAAGCCGGTTTCCATCTAGCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003175:ENSGALT00000005036:18
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCAGCTTTGAGATTTATAACGGA
R:
CATGCTAGATGGAAACCGGCT
Band lengths:
214-575
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]