GgaINT0002545 @ galGal3
Intron Retention
Gene
ENSGALG00000003038 | ATF7
Description
NA
Coordinates
chrUn_random:38353378-38354456:+
Coord C1 exon
chrUn_random:38353378-38353524
Coord A exon
chrUn_random:38353525-38354258
Coord C2 exon
chrUn_random:38354259-38354456
Length
734 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGC
5' ss Score
5.61
3' ss Seq
CATCTCTTCCCCATCTCCAGGTT
3' ss Score
10.02
Exon sequences
Seq C1 exon
AGGCTGAAGGCCAGCTTGACGGCGTCTTCCTCGCTGAACGGCAGCAGCCTGGTGGTGGGCTCAGCCAGCACGATGGTGACCGCGCGCCCGGAGCAGAGCCAGATCCTCGTCCAGCACCCCGACGCTCCATCGCCAGCTCAGCCTCAG
Seq A exon
GTCTGCTGCTGCCAGCCCCGTGCTGGGGGTCACTGAGCCTCAGGGAGAGGGGAGCAAACCTCGCAGCCTCCTGGTTTGCTACATGGGTGAACAACTTTGTTTTTCCAGCACCGCTTCAGCACTGACGCTCTCAGACCAGGCAGAAAACTCCACCAAGGCGTTGATCTGCTTGACGGGGGCTGGAGCTCCGAAAGGATATTTTGCTCCCTTCTCCCCGCTCAATTACGAGGGTTAAACGCTCCCCTCTCAGGCAATCAGCCCCGGCAGCTCCTGCCAGCTCACCAAATGCCAGCCCTCCATCAGCGCCGCCACCTGCTCTGTCAGCTTTAATATCCATCTGCTGCCTGACAGCCCAGCCGCCGCAGAGCCCACCGGGTTGGGACCCCGCGCCCTCCCCACCATTTCTTTTGTTCTGGAATGAGGCTGGGATGCGGAGCTACAGAATCCTCCCTCCCCATTGCCTCCAGGGCTGTGTCTGGCTGAAGGCATTTGGAGAAAATGGAAAGCAAATTAATCTCGAAAGCAAATTGCCCACTCAGAAACCAGTTTGTTTGTGCTCTGCCTGTGGTTATGGAACCCAACTGGAGACGGCGCGTGGTTTCCATCCCCAAAGCAGATCCCTCTTCCCTCCTGCCCCGAGACCCCACACCTCCTCTGCCAGACCTGGTGGGAAGTGCTTGCTCCGGGCTCCGTTAGCTGCGTGCTCCCTTTCAGCATCTCTTCCCCATCTCCAG
Seq C2 exon
GTTTCCCCTGCCCAACCCACCCCCAGCACCGGCGGCCGGCGGAGGCGGACGGTGGATGAGGACCCCGATGAGCGCCGGCAGCGGTTCCTGGAGCGGAACAGAGCTGCTGCCTCACGCTGCCGGCAGAAACGCAAGCTGTGGGTGTCCTCCTTGGAGAAGAAAGCCGAGGAGCTCACAACGCAGAACATCCAGCTGAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003038:ENSGALT00000004807:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.980 A=NA C2=0.697
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0017016=bZIP_1=PU(70.3=68.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAAGGCCAGCTTGACGG
R:
GCTCAGCTGGATGTTCTGCG
Band lengths:
342-1076
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]