GgaINT0014070 @ galGal3
Intron Retention
Gene
ENSGALG00000003917 | F1P2F9_CHICK
Description
NA
Coordinates
chr14:2253279-2254093:+
Coord C1 exon
chr14:2253279-2253466
Coord A exon
chr14:2253467-2253951
Coord C2 exon
chr14:2253952-2254093
Length
485 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
GCATCTTTGATCCCTTGCAGGGT
3' ss Score
9.28
Exon sequences
Seq C1 exon
GAAAAATTCAGGAAGAAATGAACCAGGTCATCGAGCCAGGGGAGATGCCGAGGCTGGAGGACCGGAAAAAGATGCCTTACACAGATGCAGTGATACACGAAATACAAAGATTTGCCAATATTGTCCCAATGGGTGTGTCACGATCAACACCTACTGATGTGAATTTCCGAGGCTACGTAATTCCTAAG
Seq A exon
GTGAGCTTTGGGGCCAGCAGCTTACACTGCACCAATTCATTACCATGTTAACTAAAGCTGATAAGAAATATCTAAATATCTAGAGATGCCTTGATGCTTGGTTTAATCTGCCGTGTAGTTCTTTGTCTTGGACGCAGAACAACTGTTACAAACATGTAGTGGATTGTGGTCTGTTACAGCCACTTGAATCCAGAATAACCAGACTTTAATGAAGTCACACTGGTTTGATTCTATTACGCCCAAAGTGAAATCCATACTTCAGTATACTTCGTAAAAGATCCACCAGAATCTGCAAGAAGAAAGCTTTCATGGTGCAAAAGGAGAGCAGCAACTACTGATAACAGGCAAAGTCACAGTGGGGCCAGGAAGCATCCTCTGGTTCTGTTTGCCATGGCTCAGTCTTATTTGTTTCTTCACATGGGAAAAAAAGAAAGCTATCCCAGCTTCCTTCTGCTCCAAACAGCTGCATCTTTGATCCCTTGCAG
Seq C2 exon
GGTACAGAGATTATACCGCTGCTGACCTCTGCTCTGAATGACGAGCTGCACTGGAAAACCCCACATCAGTTCAACCCATCCCACTTCCTGGACGCTGATGGGAACTTTGTTAGGAGAGAGGCATTTATTCCATTCTCCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003917:ENSGALT00000006238:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.254 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(13.5=100)
A:
NA
C2:
PF0006717=p450=FE(10.3=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
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAATTCAGGAAGAAATGAACCAGGT
R:
ATGGAGAATGGAATAAATGCCTCTCT
Band lengths:
326-811
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]