GgaINT0125427 @ galGal3
Intron Retention
Gene
ENSGALG00000003175 | C9orf96
Description
NA
Coordinates
chr17:7571701-7572470:+
Coord C1 exon
chr17:7571701-7571829
Coord A exon
chr17:7571830-7572332
Coord C2 exon
chr17:7572333-7572470
Length
503 bp
Sequences
Splice sites
5' ss Seq
CTGGTAACT
5' ss Score
5.45
3' ss Seq
AGCATTTGTTTCCCTTTCAGAAA
3' ss Score
9.33
Exon sequences
Seq C1 exon
GTTTTTTAACTGAAAATGACTATGAGCCCACAACAGTGCTTCTGATGGATGCACTCAGGATGAACCTGGAAAAACCAATGCTGGTGAATAATACCTGCCTGGCATTAGCAAGCCTTCTAAGACTATCTG
Seq A exon
GTAACTCTGAACAATTAGTTTTTGTTAATTGCAAATCACCTCAGACGTAGGCATTTCTTTGTAGTTCAAAAGTTCATAGTGGAATTGAGATTGTCATCTGCTCTGCTTTGTTAATCATTTCTTTCTTGCAGAGCAGGGAGGAAGAACAGTAAAACTGGAAGTGCAATTTTCTTTCTTGTGGATGTGGCATGCATGTCTGAGAAGCAGATCAGCACAGTCTCATTATTAACTTGAGCGTTCTCACTTTATTTACAGTATAAATGGGTAGAGCTCAGAGAAACAATAAATATGAAAATATTGCCTCTTCTATGCAACGTCATGCTGCATATGTAGTTCTCTACTTGTCCAAATAATCTTCAGAATAGCTTCTAGAAAGGCTGAAAAGAATGGATGTGACTTCCTGGAGAAATGTTATATGTGTGCTGCCAGGGGCAAGGGACCAGAAAGCAGATAGCACAGTCTGCACATATGAATTAGTCCAGCAGCATTTGTTTCCCTTTCAG
Seq C2 exon
AAATAGCAGCTTTGAGATTTATAACGGATTCAAAAGGCAGTGGAATAAACCTGATCAAAGATGCCTACCGCTTCTACTGTGATGATCCACAAGTGGTGGAAAGTATCTGTGTGCTGATTAATGAGATGGTTCAGTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003175:ENSGALT00000005036:17
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:
TTAACTGAAAATGACTATGAGCCCAC
R:
CATACTGAACCATCTCATTAATCAGC
Band lengths:
262-765
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]