GgaINT0078881 @ galGal4
Intron Retention
Gene
ENSGALG00000009896 | TRERF1
Description
transcriptional regulating factor 1 [Source:HGNC Symbol;Acc:HGNC:18273]
Coordinates
chr3:22213946-22215300:-
Coord C1 exon
chr3:22215197-22215300
Coord A exon
chr3:22214022-22215196
Coord C2 exon
chr3:22213946-22214021
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:ENSGALT00000016090:10
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]