GgaINT0044465 @ galGal3
Intron Retention
Gene
ENSGALG00000008905 | F1NEB3_CHICK
Description
NA
Coordinates
chr6:28908598-28908996:+
Coord C1 exon
chr6:28908598-28908692
Coord A exon
chr6:28908693-28908734
Coord C2 exon
chr6:28908735-28908996
Length
42 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAG
5' ss Score
7.1
3' ss Seq
AGCTGGTTGGCCATGCATAGGTA
3' ss Score
2.04
Exon sequences
Seq C1 exon
AAATCCTGATGAGGATCAAAAGCCCTGGTGTTTCATTAGAAACAATGGCAAAGTGCAATGGGACTTCTGTGATGTTTCACCATGCTCTGGAACAG
Seq A exon
GTAGAGTAATCGATTAGGAGTGAGCTGGTTGGCCATGCATAG
Seq C2 exon
GTAGGATTTCTGCAGTACGTGTTGCTATTTCTTCCAACACAGATGAGGAGAGACAAGAGCAAGAAGATGAAATGTTCAAAACCTGTGGACAACCAGAAAGTCAAAGGGGACTCAGGAGAATCTATGGTGGAACTAAGACTACAGCTGGCAAGCACCCCTGGATGGTATCTCTGCAGAGAAAGTCTTCTAGAAGAGTAACACACTTCTGTGGTGGAGCGCTAATTAAATCATGCTGGGTTCTTACTGCTGCACACTGTGTCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008905:ENSGALT00000033102:8
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=0.330
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PD(34.1=84.8)
A:
NA
C2:
PF0008921=Trypsin=PU(19.9=53.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGATCAAAAGCCCTGGTGT
R:
TGCTCTTGTCTCTCCTCATCTGT
Band lengths:
146-188
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]