GgaINT0130770 @ galGal3
Intron Retention
Gene
ENSGALG00000002576 | F1NI02_CHICK
Description
NA
Coordinates
chr19:4905956-4906249:-
Coord C1 exon
chr19:4906193-4906249
Coord A exon
chr19:4906151-4906192
Coord C2 exon
chr19:4905956-4906150
Length
42 bp
Sequences
Splice sites
5' ss Seq
AATGAAATT
5' ss Score
-6.69
3' ss Seq
TACCTCTTCCACTCTCTCAGGGA
3' ss Score
8.38
Exon sequences
Seq C1 exon
GCCTCTATATTGCATAAAGTTCTCAGTGGAAATAACATTGTTCTTAAAACTATAAAT
Seq A exon
GAAATTATAGGCCTCTTTGATTTACCTCTTCCACTCTCTCAG
Seq C2 exon
GGAGATAAACTCTGGGGGGGAAGATTCAGCGGAAGCACAGATCCCATCATGGAGATGCTCAACTCTTCCATTGCCTGTGATCAGAGACTGTCTGAAGTTGATATCCAGGGGAGCATGGCTTATGCCAAAGCATTGGAGAAGGCTGGCATCCTAACTAAAACTGAGCTGGAGAAGATCCTGAGTGGCCTGGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002576:ENSGALT00000039984:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.003
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0020615=Lyase_1=PU(19.7=85.3)
Associated events
Conservation
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGCATAAAGTTCTCAGTGGAAAT
R:
AGACAGTCTCTGATCACAGGCA
Band lengths:
141-183
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]