GgaINT0125618 @ galGal3
Intron Retention
Gene
ENSGALG00000005095 | F1NYW3_CHICK
Description
NA
Coordinates
chr17:5433339-5433847:-
Coord C1 exon
chr17:5433740-5433847
Coord A exon
chr17:5433507-5433739
Coord C2 exon
chr17:5433339-5433506
Length
233 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CATTTAATCTTGTCTTCTAGGTT
3' ss Score
10.93
Exon sequences
Seq C1 exon
ATCAAGAGGTTCATTGGTACTGACCAGGAAATGCTGAGGATTCACGAGCGGCTGTTAGCTGGCTCTCTGGCTGGGGCCATCGCACAGAGCAGCATCTACCCGATGGAG
Seq A exon
GTGAGGCCACTGACAGTGCAGCCCCTGGAGGGTCATGGGAGGGTGCCAAGATGAGAGCTGATGTTCTGCCCGTATCTCTGAGAACTCGTTAAGCAAGCTGATACCAAGTCATGCTGCTCACATGACACCCGCTGTAGCCCTGACCGTCCTGGCTCCTCAGAATTGCATTGTCTGTATCTTTTCTCCTGTTGATTCTCCTGCAGGTCTTAATGGCATTTAATCTTGTCTTCTAG
Seq C2 exon
GTTCTGAAAACACGGATGGCTCTGAGAAAGACAGGACAGTATTCAGGCATGTTGGATTGTGCCAAAAACATCCTTTCCAAGGAAGGAATGGCTGCCTTCTACAAAGGCTACATTCCCAACATGCTAGGAATCATTCCATATGCTGGGATTGACCTGGCAGTGTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005095:ENSGALT00000008172:7
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:
PF0015322=Mito_carr=PD(8.5=22.2),PF0015322=Mito_carr=PU(28.0=72.2)
A:
NA
C2:
PF0015322=Mito_carr=FE(59.1=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:
ATCAAGAGGTTCATTGGTACTGAC
R:
CTCATACACTGCCAGGTCAATCC
Band lengths:
276-509
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]