GgaINT0012418 @ galGal3
Intron Retention
Gene
ENSGALG00000009208 | NET3_CHICK
Description
NA
Coordinates
chr14:14766050-14766542:-
Coord C1 exon
chr14:14766468-14766542
Coord A exon
chr14:14766379-14766467
Coord C2 exon
chr14:14766050-14766378
Length
89 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGG
5' ss Score
10.38
3' ss Seq
CTCTCCCTCTTTTCCCTCAGTGG
3' ss Score
10.56
Exon sequences
Seq C1 exon
ACTGTGACTCCTACTGCAAGCCAGCCAAAGGCAACTACAAGATTAACATGAAGAAGTACTGCAAGAAGGATTACG
Seq A exon
GTAAGGCTGCCCTGCGTCCCCAGGGACGGCGGTTCCATCAGGAGCTGGCAGAGCATCCCCATCACCTTCCTCTCCCTCTTTTCCCTCAG
Seq C2 exon
TGGTCCAAGTGAACATTTTGGAAATGGAGACGGTGGCCAACTGGGCCAAGTTCACCATCAACATCCTCTCTGTCTACAAGTGCCGCGACGAGCGGGTCAAGCGCGGAGACAACTTCTTGTGGATCCACCTCAAGGACCTGTCCTGCAAGTGCCCCAAAATCCAGATCAGCAAGAAGTACCTGGTGATGGGCATCAGCGAGAACTCCACCGACCGGCCGGGACTGATGGCCGACAAGAACAGCCTGGTCATCCAGTGGAGGGACGCCTGGACTCGCCGCCTTCGGAAACTGCAGCGGAGGGAGAAGAAAGGGAAGTGTGTGAAGCCCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009208:ENSGALT00000014992:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.014
Domain overlap (PFAM):
C1:
PF0175916=NTR=PU(7.5=30.8)
A:
NA
C2:
PF0175916=NTR=PD(91.6=89.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTACTGCAAGCCAGCCAAAGG
R:
AAGAAGTTGTCTCCGCGCTTG
Band lengths:
183-272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]