GgaINT0125613 @ galGal3
Intron Retention
Gene
ENSGALG00000005095 | F1NYW3_CHICK
Description
NA
Coordinates
chr17:5436699-5437001:-
Coord C1 exon
chr17:5436875-5437001
Coord A exon
chr17:5436787-5436874
Coord C2 exon
chr17:5436699-5436786
Length
88 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
TCGGTGCCTTCTCTTTGCAGGCC
3' ss Score
11.85
Exon sequences
Seq C1 exon
AAAATTGTGAAGGCTGGAGACAAGGACCTGGACGGACAGCTGGACTTTGAGGAGTTTGTGCACTATCTGCAGGATCACGAAAAGAAGCTAAGGCTGGTCTTCAAGAGCTTGGATAAGAAGAATGATG
Seq A exon
GTGAGCACCTTTCTCTTGCTCACAGACAGACTGTTCCTTGCTTCAGCTCATCATACAAATATTTGAGCTCGGTGCCTTCTCTTTGCAG
Seq C2 exon
GCCGTATCGATGCCCAGGAGATTGTACAGTCTCTTCGGGACCTGGGAGTTAAGATCTCTGAACAGCAGGCTGAAAAAATACTGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005095:ENSGALT00000008172:2
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:
PF134991=EF-hand_7=PD(34.4=51.2),PF134991=EF-hand_7=PU(24.2=34.9)
A:
NA
C2:
PF134991=EF-hand_7=FE(46.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGAAGGCTGGAGACAAGGA
R:
TAACTCCCAGGTCCCGAAGAG
Band lengths:
173-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]