GgaINT0125617 @ galGal3
Intron Retention
Gene
ENSGALG00000005095 | F1NYW3_CHICK
Description
NA
Coordinates
chr17:5433740-5434120:-
Coord C1 exon
chr17:5433968-5434120
Coord A exon
chr17:5433848-5433967
Coord C2 exon
chr17:5433740-5433847
Length
120 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
GTCTGCCTTGGCTTCCACAGATC
3' ss Score
10.46
Exon sequences
Seq C1 exon
GTTCATGCCTCCCGCAGTAACAACATGTGTATCATTGGTGGTTTTACTCAAATGATCCGAGAGGGTGGAACAAGGTCACTGTGGAGGGGGAATGGCATCAACGTGCTGAAGATTGCACCAGAGTCTGCCATCAAGTTCATGGCTTATGAGCAG
Seq A exon
GTAAGTGAAAGTGCATGGGAGGAATCTGACCGCGCTGGGGGGCTGTGGAAGGACAAGCTGAAAAGAGTGGCTGAGGTGAGGCCGGAGAACCTCAATGTCTGTCTGCCTTGGCTTCCACAG
Seq C2 exon
ATCAAGAGGTTCATTGGTACTGACCAGGAAATGCTGAGGATTCACGAGCGGCTGTTAGCTGGCTCTCTGGCTGGGGCCATCGCACAGAGCAGCATCTACCCGATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005095:ENSGALT00000008172:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0015322=Mito_carr=FE(53.2=100)
A:
NA
C2:
PF0015322=Mito_carr=PD(8.5=22.2),PF0015322=Mito_carr=PU(28.0=72.2)
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:
CCTCCCGCAGTAACAACATGT
R:
ATCGGGTAGATGCTGCTCTGT
Band lengths:
250-370
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]