GgaINT0078885 @ galGal4
Intron Retention
Gene
ENSGALG00000009896 | TRERF1
Description
transcriptional regulating factor 1 [Source:HGNC Symbol;Acc:HGNC:18273]
Coordinates
chr3:22206123-22207008:-
Coord C1 exon
chr3:22206820-22207008
Coord A exon
chr3:22206332-22206819
Coord C2 exon
chr3:22206123-22206331
Length
488 bp
Sequences
Splice sites
5' ss Seq
GCTGTACGT
5' ss Score
5.68
3' ss Seq
TCCACTCTGCTCTCCATCAGGTG
3' ss Score
9.08
Exon sequences
Seq C1 exon
ACAAGTGGAGAAGAGGAAGTGTTAGAGGAAGATGAGGAGATTGAAGAAGACAGAAAGGAAGAAAGGGAAATGCAGAAGTCTCCTGACCCACCAGCTATCCCTCTTGTTGGACCTATAGACCTGCCTACCCTTCAGAGTCTTTCACTTTCTTCATCCTCTTTCATCTGTGAAATGCCAAACTGTGGTGCT
Seq A exon
GTACGTGTGTTTCATGTCTTCAAATAATAGCGGGGGCTTCATATCTTAACATGCAGTGATTTTTGGAAATCAGATGTTAAGGCAATTCCTGGCCAGTGATACCTCCTGAATATCTTCAGGCAAATGATTTTGTCTGCTTTGAAATCCCTTATCATTCAATACAGGCAATATGCAGATCTGTACATAGAATTGTATGATGTAGGGATGAGAAGTGCTATATAATGACAGCCCTGATTACCTTTTTGTTAACAACTGTAATAGTAAGATAGCTCATTGGTTTTCATTTATTATGACTAAGTTAGTTTAATTCTAATGGGAAATAGCTGAGAGCAAGCAACATTTGAACAGGAAAATTGTTTGTGTGCATATCTGACATGTACAGTTGTTTTTAATAATACGCATTCATTATACTTCTTCACGCAGTTCCTATTGCAAGGCAGTCTTTCTTGATTTTTGTTTTTAATTCTCTCCACTCTGCTCTCCATCAG
Seq C2 exon
GTGTTCAGTTCCCGACAAGCACTAAATGGCCACGCTCGCATTCATGGAGGTACAAATCAGGTGACAAAGCCACGATGCACCATTGCAGGCACTAAGCAGAAATCTGGTACACAGAGCGGGTACTGCTCCATCAAGAGCTCACCTGCCCACAGCACAACAAGTGGTGAGACCGACCCAACAACAATTTTTCCTTGTAAGGAATGTGACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009896:ENSGALT00000016090:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.603 A=NA C2=0.671
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
ACAAGTGGAGAAGAGGAAGTGT
R:
TCACCACTTGTTGTGCTGTGG
Band lengths:
356-844
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]