GgaINT0054590 @ galGal4
Intron Retention
Gene
ENSGALG00000009920 | Protein
Description
Cochlin [Source:UniProtKB/Swiss-Prot;Acc:O42163]
Coordinates
chr5:33529186-33530170:+
Coord C1 exon
chr5:33529186-33529251
Coord A exon
chr5:33529252-33530125
Coord C2 exon
chr5:33530126-33530170
Length
874 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
TGCTGTATCCTTCATTAAAGGCA
3' ss Score
5.39
Exon sequences
Seq C1 exon
CAGGTACCAACAACCTAGCGCTTGAAGCAGTGGGACGATCAGTTGCAACAGCACGACCTGCTACAG
Seq A exon
GTACCAGTCACATCTCTCCAACAGTGGAAGTCTCCTGTGTTAAGATGTGCTATAGGGCATGAGTCCCTGACTAACACGCTAAGTTTCATAGGATGTATTTATAAAGGAGAAAACATATATGAAATTCATTTCTGTGTATATCTCATCAGGAAAAGGAATAATTGCTTATAATCAGACTGATTCTGATTTCAGTAACATTTGTGTAAATGAAGAAACACTTGAATGAATTTGGAAAAGTAATACAGGTGACATAAAGGAAGAAAGGAGTCTGTGAGTTCATGGGATATTCATTCCTATTAAATGACAGAGAAGATGGATTATCCATTCCTTTTTACAGAAGTATTTAACAACTAAGTGCTGTCAGGATTTATGAAGCAGAAATTTAGATGCTATGTTAATTTCTCTGCAGAAAATACCACCAGTAAAAGGCTAGATCAGTTTTTATGAAGGCTAGTGGCGTATACGTATTGGACTTGGATCTCATTTGTGAATAGAACATCTGCTTTACAGTTTAAGTCCCAGCTTGCTTCCAAAGCATAAAAACTGTCCCCGTACAGCAGGTAGCTAACTGAAAAATAGTAGGGCTTGGGATGCTGAGCTACGAGTGATTTCTGTATAAGCCTTTTTGTGTATACATTTCAGTAGTCAGCGAGGCAGGTGTAAAAAGGAAGATTAAATTGTTTCATTTGAAAAAGAATATTCTCCAAGGAGCAAAGAAATTGCACTGCAACTGTAACTATTGAATTGACTGCAGAATGATGCAGTCCCATGCCAATTTTCACTGAGGACAGCCTGCAATGCAATTCTTAGAGTCTAAGCTTCTTCTGTACGTCTTGTTGTTCTTAAATGATCCATGCTGTATCCTTCATTAAAG
Seq C2 exon
GCAAAAGACCTAAGAAGACCCTCGAGAAAAAGGCTGGAAACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009920:ENSGALT00000016132:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.217 A=NA C2=0.750
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]