GgaINT0047067 @ galGal3
Intron Retention
Gene
ENSGALG00000009172 | E1BQU1_CHICK
Description
NA
Coordinates
chr7:16533052-16534003:-
Coord C1 exon
chr7:16533881-16534003
Coord A exon
chr7:16533366-16533880
Coord C2 exon
chr7:16533052-16533365
Length
515 bp
Sequences
Splice sites
5' ss Seq
TAAGTGAGT
5' ss Score
6.43
3' ss Seq
CTCTCTTTTTTCTTTTATAGAAA
3' ss Score
11.76
Exon sequences
Seq C1 exon
GCTTCTGGAGGAAGGAAATATAGAAGCAGCAGCATCAGAGAAACAAAGAATAGAAGAACTCCAGAGAAGTCGGAGGCGGTACATGGAAGAAAACAGCATTGAATATGTACCCAAGTTTTTTAA
Seq A exon
GTGAGTCTTTTCATTTCAGTAGTAAGCCTTTGCTGTGCTGTGACTGAATGAAGTATTGCGCCACACAGCCAATAGTTTTTGAAGTTTAAAATAGGATAGAAGTATAACATTCTGGGAGCTGTTGTTGTTCATCATTCTTAGCTCTTAGAAACCAAGATTTAGCTAAGTTATCATTGTAAGTCATTGCATAGACGAAGTAATAAATGGGGACCTGAACAAAAACAACATATGTACACACACAGATATATAATGTAGATATAAATATATATATACACATTTAATTACAATTAATTTTTTAGAGAATTTTTTTTAATTAAGCAGTCTTTTGAAACAATGGATACCCATTCCAAACATCGTGTATTCAGTTTGAAGAATCAAAAGTGGTGAGACTGAAAGAGCTCAGTGTCTGTTTAATGAAACGTTATGGTTAGATCAGAGAGATGTGGTATTGATTGCATATTATATAGGACCAGAGATTTGAGATCAGACTTCTCTCTCTCTTTTTTCTTTTATAG
Seq C2 exon
AAAAGTTATCGATGCTAATCAAAGAGAAGCCTGGGTTACCAATGAAACCTACTGGGAACTGCGAAAGGATCCTGGATTTAGTAAAGTAGAAATTCCTGTACTCTGGTAAACTGAGAATGTAGATCTAGTAAACATATCACTCTGAAGAAAAAAATAACTATGCACAATATGTTTCTTATAGATAAGCGTGGTTTGTGGGTCTACGGAAAAACCTATCATTTGCATTTATTTTCATCTTTATAATGGACTTTTGAAAGTGCATTAGACCAGGCCCCTGACCACTTCTGGATCTTTTTAATTTTGCAGCAGCCATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009172:ENSGALT00000014942:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0123713=Oxysterol_BP=FE(11.6=100)
A:
NA
C2:
PF0123713=Oxysterol_BP=PD(5.7=54.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAAGTCGGAGGCGGTACAT
R:
AGATCCAGAAGTGGTCAGGGG
Band lengths:
352-867
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]