GgaINT0030797 @ galGal3
Intron Retention
Gene
ENSGALG00000008178 | E1C788_CHICK
Description
NA
Coordinates
chr9:16791597-16792612:-
Coord C1 exon
chr9:16792448-16792612
Coord A exon
chr9:16791765-16792447
Coord C2 exon
chr9:16791597-16791764
Length
683 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGC
5' ss Score
9.55
3' ss Seq
TTGCATTGACTAACGCGCAGCTA
3' ss Score
1.53
Exon sequences
Seq C1 exon
ATGGTGACTGTGATGCTGTTATCCCTAGTTTTGTTTCTGCTGGGTTTGCAGTTCCTGAGACTTCAGTGGAGAAGTCGCCGGTTCCCTCCTGGCCCGATCCCATTTCCCATCATTGGAAGCATCTGGTGGATAAATTTTAGAGCTGACCATGGGAGCCTGAAAAAG
Seq A exon
GTATGCATTTGTGGATGGGGGCGAAGGAGCAAAAGCTGTAACCAATGATGGTGGTTGTTGATAGGTTGATATGTTTGTTGGGAGAACTTCAAAGGGAGGAAAGATGGATCATGGAAGTTAAATGCAGTGCCCGAAGGAGTCAAAATCTACAGCCTCCTGTGATATAAATGAATATGGGGATAGTGATGTCTTCAGGTTAAAGACAAATGGAGGATTTCAGCACTTTTGAACTTGTTCTTCCAATGTTCTGCATGTAAATGTGTAATTTCAAGAAGTTCTAGTTTTTTTTGGCTGAGGAAATGAAACGAGGAGTTGAAAACTGGAATTGGGCATGTGAACTTTCATATGAAACCTAGTGTGAGCTGTAAATACCCATCCAGGGGCACTTCCACAATCATTAATATCACAAAGACAACCCATGCTATGCGTTAAAAAGAGCAAGAGCAGCTGTTCTTTTCACCATTCACATTACTGTGAATAGTGGGATCCCAGAGCGATGCTACAACTTTACTGTCATAAACGTTCCCATTGCAAAACAAAACCATTTTCCCCTCTTCATTTCCTGAACCCTGGGGTAAAGTCATGTTGGAAGAGAAGACCCCATTGTGTGTGCATTTTGGTTGATGTTTCTCCAATAGTTTTTTGGTTTGTTTGGTTTTTGTTTTGCATTGACTAACGCGCAG
Seq C2 exon
CTAGCAAAAGCCTATGGCAACATCTGCACCCTGTGGCTGGGTCACAAACCCATAGTGGTGCTGTATGGCTTCAAAGCGGTGAAGGATGGTCTCACCACCAACTCAGAGGATGTTTCTGGGCGGCTACAGACCTACTTGTTCAACAGATTTTCTTCTGGAAAAGGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008178:ENSGALT00000013305:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=PU(5.7=47.3)
A:
NA
C2:
PF0006717=p450=FE(12.0=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
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
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:
ATGGTGACTGTGATGCTGTTATCC
R:
TTTCCAGAAGAAAATCTGTTGAACA
Band lengths:
326-1009
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]