GgaINT0108166 @ galGal3
Intron Retention
Gene
ENSGALG00000023986 | F1P0H2_CHICK
Description
NA
Coordinates
chr1:105868-106833:-
Coord C1 exon
chr1:106636-106833
Coord A exon
chr1:106134-106635
Coord C2 exon
chr1:105868-106133
Length
502 bp
Sequences
Splice sites
5' ss Seq
AACGTAAGG
5' ss Score
7.34
3' ss Seq
TTTCTCTGCCCTCCTTGCAGCCC
3' ss Score
11.89
Exon sequences
Seq C1 exon
CACCTGCGGGCTCCGGCCCATGGCTTATCACTACGGGGGAACGCGTGTCGTGGGCGGCACGGACGCCCCGCAGGGGGCCTGGCCGTGGATTGTCAGCCTCCAAAGCACGTGGTATGTGGGCACGGGACACATCTGTGGAGGATCTCTCATCACCCCGCAGTGGGTCCTCACGGCAGCGCACTGCTTCGACCATGCAAC
Seq A exon
GTAAGGGCCATCCCCTTCCCTGCAGCACAGACAGCGTGGGCGCTCCTGGGTGCCCTCCTGGGGGTGGTGCACACCGCAGCTTCCAGCAGCCCTTAGCTCAGCTGTCCTCATTGCCCAGGGCACACCTGGGATGTCACAGCCCTTATAGGACTGCTTTCCTCCCTTCTGCATAACAGAGATAGCCGGGAACTGGGGAAATGGCTTTAAGTAGAGGGAGGGAAGACTGAGGTTGGGTGTCGGGGAAGTTCTTCACTCTGAGTGTGGGGAGGTGTTGAACAGCTGCCCAGAGAGGCTGTGGATGCCCCGTCCATCCCTGGAGGTGGTCAAGGCCAGGTTGGATGGGGCCCTGGGCAGCCTGGGCTGGTATTAAGTGGGGAGGTCGGTGGCCCTATATGCGGTGGGGGGTGGGTTAGAGCTTCATGATCCTTGAGGTCCTTTCCAACCCGACCCATTCTGTGATGTTGCCACGTTCCTTCTGACCCTTTCTCTGCCCTCCTTGCAG
Seq C2 exon
CCCCGACACGCCGTGGCACGTGGTGATCGGTGGCCACGATCTGAAACGCCTGGGCCCCGAAGCTGTCGTGCGCAACGTGATACGGATAATCCCCCACGAATACTATCACAGAAACAACATGGCCAATGACATCGCGCTGCTTGAGCTGGACCAACCTGTCCAGTGCAGCTACTACATCCAGCTCGCCTGCGTGCCCGATGCCTCGCTGCGAGTGTCAGAGCTCACAGACTGCTATGTCAGTGGCTGGGGACACATGGGGCTGAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023986:ENSGALT00000040436:2
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:
PF0008921=Trypsin=PU(20.8=74.6)
A:
NA
C2:
PF0008921=Trypsin=FE(37.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGATTGTCAGCCTCCAAAGCA
R:
GCAGTCTGTGAGCTCTGACAC
Band lengths:
344-846
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]