GgaINT0078879 @ galGal3
Intron Retention
Gene
ENSGALG00000009896 | TRERF1
Description
NA
Coordinates
chr3:24029784-24030737:-
Coord C1 exon
chr3:24030677-24030737
Coord A exon
chr3:24029924-24030676
Coord C2 exon
chr3:24029784-24029923
Length
753 bp
Sequences
Splice sites
5' ss Seq
ACCGTAAGA
5' ss Score
6.66
3' ss Seq
TTGTTTGTTTGTTATTACAGACG
3' ss Score
6.99
Exon sequences
Seq C1 exon
GTAGCATTGATGGAAGTGTAATTCCAGTGACGCCTGGGCCTGGTGAACAGACTGTTGAACC
Seq A exon
GTAAGAAAAACAATATTTCTTTTGTCTTTGCTTCTGTAGACTAGCTTCAGCCTAGGATTTGTGCATAAAATATTTTGGACCAAGCGAGTGGTGTTCAGCTGCCTGAAACAGTGTTGGACTGGATGTGTTTAAGGGTACTGCTGCATGGTGGAGCAGTGCTTGTGGGAGATATGGATGTCCTGGTTCTAAAATGCTAGGTGAGGCTTAGTTGGAGCTGCTGAAGGCAGAAAACTCTTGGTAATGTCCGAGGAAAGGGCCACAAAAACATGTGCTGCTCCACTACTTTTGCCTTTACATATACGTTGCCCCTGGTGCTTTGGAGGGAGATGTTGTCTGGTGGGTTCCTCGGGGCAGTCTGCAAACAAGGTTGCCCTCCTGGCAGTCTTTCTGCTCTTTACCACAGAGTCATTCTGTGGAACAGAAAGTTAGGGTTTCCCACATCTAGCCTTTTTGCTAGGCAGTACGTGCATACGCTCACTCAGCTTACCTTTAAGATAACCTGACGATGTCTTGAGATAGTTGAAATCATGCATTGAAATTTTAGTTTCCTCCCAAGAGATCAGTTCTCTCTAATACTCAAAATACTTATCCTATTGAGAGGAAAGCATTTCATAAAGCAGTCTGACACAATTTCCTGCCACAATTTCCAATATAATAAAAGTTTTTTTAGGAACAAAGTGAACACTAACGCAACTTCTGTTTTTTCCTGCACATTGCATAGTTGAATACCTATTTGTTTGTTTGTTATTACAG
Seq C2 exon
ACGAATTAATATTGGGTCCAGGTTCCAGGCCGATATTCCTGAGCTTCAGGACAAACTGCTGATGGAGAAAGATGTGCACAAGGCTACTCTGGTTTGGAAACCGTGGCCCGAACTGGAGAACAAAGTCTTCCAACAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009896:ENSGALT00000016090:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.682 A=NA C2=0.104
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0144819=ELM2=PU(78.9=93.8)
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:
GGAAGTGTAATTCCAGTGACGC
R:
CTCTTTGTTGGAAGACTTTGTTCTCC
Band lengths:
190-943
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]