GgaINT0014066 @ galGal3
Intron Retention
Gene
ENSGALG00000003917 | F1P2F9_CHICK
Description
NA
Coordinates
chr14:2250719-2251409:+
Coord C1 exon
chr14:2250719-2250868
Coord A exon
chr14:2250869-2251248
Coord C2 exon
chr14:2251249-2251409
Length
380 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TCATTTTGCCTGAACTGCAGGGA
3' ss Score
6.38
Exon sequences
Seq C1 exon
GCATAGCATTCAGCCACGGAGAGTTATGGAAAACTATGAGAAGATTCACCTTGTCCACACTGCGAGATTTTGGAATGGGAAGGAGAACAATTGAGGTCCGAATCCTGGAGGAACTAAATTCTCTAATTAAACATTTTGAATCTTATCAAG
Seq A exon
GTGAGTGTCAACAATTTCATCCGGAGACAGAAAACGTGTCTAGCAGAACAATAAAGATTAACGAAAGTTTAACATTGAGCAAATGGTATTTGATGGTTAAAGTTCAGCATGTGCTTAGGTAGGTTATTAAACGGAGGCCTTAAGACATTGAAACCAGAGTCCCTGCTGTGCATTCTGGGTGGTAAATGAGGCTTTTTCTCCACATTTCCACAGTAAACTGACCAAATCTCTGTCCTTTTCCCATGCCTTGAATGTGGCATTTTGCACAGCATTCCCTGATAATATCTAAGGCCAGCCAGCTGTCCCCTGCCCCAGCAGCACACCCCTGCATCACAGGGCAAAATGGGCATCATCCCATCATCATTTTGCCTGAACTGCAG
Seq C2 exon
GGAAACCATTTGACACGAAGATGATCCTCAACAATGCTGTATCCAACGTCATCTGCTCTATACTGTTCGGAGAGAGGTTTGAATATGATGATCCAGCATTTCTCACTTTGCTGAAGCTGTTAAATGAGAATACCAAGCTGCTGGGCTCACCAATGATGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003917:ENSGALT00000006238:3
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:
PF0006717=p450=FE(10.9=100)
A:
NA
C2:
PF0006717=p450=FE(11.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATTCAGCCACGGAGAGTTA
R:
CATCATTGGTGAGCCCAGCA
Band lengths:
303-683
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]