GgaINT0078881 @ galGal3
Intron Retention
Gene
ENSGALG00000009896 | TRERF1
Description
NA
Coordinates
chr3:24027739-24029093:-
Coord C1 exon
chr3:24028990-24029093
Coord A exon
chr3:24027815-24028989
Coord C2 exon
chr3:24027739-24027814
Length
1175 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
CCCTCTGCTTATTCATTTAGGTT
3' ss Score
10.13
Exon sequences
Seq C1 exon
TGGAAGACCTCTTAAATATGAGCTGTTCCAGCGTGTTACCTGGTGGAGGAACTAACTCAGAATATGCTTTGCACTCTCTCTTTGAGGCAAAAGGAGATATTATG
Seq A exon
GTAAGATAAGCTGAAAAGGGAGAGATGCTCCTCTTTGCAGATAAGTTAGCATGCTTTATTAAATGGATTTAGATACGGTTATATAAAAAAAGAGATTTCTGATTGATTAGCAGTGATGCTTTAAACGTCCTGTAACATTTTTGGGGAATGGCTTTTCCCTTTTATTCTTTAATAAATTTAAATTTCAAAGCACTGCCTCTCTGAAGGCTTACTGTATATTTCAGATAGATAAGATTACTTAGTTTATAGCCTTGGGGTTTTGAATGTCTCCCAGTGCTTTCTCCAGACCTGATATTTCACAAGCTTTGTATTTGGTCACAGAGAGCTTAGTCCTCTTTTAGCCCTTACGAAAACTCCATTTTTTTGCAGCAGCAATCACATCTACTTATTTGTTCAGAACTGCGAGGTAATTGCATACAGTTCTCATATAAATAATGTATTTCAAATATTTGCATTAGCTTTGTGTTGGGAACATTACTAACTAAGGCTAAACCTCCATTTTGCCCAGTGCTCAGGAAAGACAAGACCTTGCCCCAGCTTCTGGAAAGCCAATTTAAAACAAAACACAACAGAACACAGGGCTTGAATGAATCTGGCAAGATTGGCTGATAGATACAGTGCTCTTTAGCTCACATCTCAGTTTCTTCAGGCTCCATTGGGTGACTGTCAGAAACTGAAACTTACTGTATGGGTGTATGCATTGTCAGGGATAAAAACCAGGAATCCCCCAAATCATCTTCATTCCCAGTCGGAATTAGCATTAATTACTTTGGAGTCATTCTTAGCAGATGTTGACATAAGCAGATGTTCTAAAAAAAAAAGTTGCCAAATCAGCCGTTAAATATTAGTATTAATACTATCAAATTAAACACTATAATCACGTTGGTTTGTGGCAAAGAGAAGGGAGAGAATTGCTGGAAGCTGATAATAGCCACATTTGTGCTAATTAAGGATAGACAAGTGTGCACTAGTTGCTCTCACATGGGCTACAGTGTTAGTGGGGTTTGGGATCATCTGTTGTGTGTTTCTTTTAATGACAAAAAAAGAACAGAAGACAAACTGATTTCTTAATATGCTACCAAATAGACTTCTAAATACAAATGTATGCAGCAACTGACTGCATTTGCTAATTCTTTCTTTTTTTTTTTTTTTTTTCCCTCTGCTTATTCATTTAG
Seq C2 exon
GTTACTCTTGAGAAGCTGCTGTTGAGGAAGCCAGTGAGATTGAAGTGTCATCCTTTGGCAAATTACCACTATGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009896:ENSGALT00000016090:8
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:
PF0144819=ELM2=PD(19.3=31.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]