GgaINT1028858 @ galGal4
Intron Retention
Gene
ENSGALG00000027242 | TTF1
Description
transcription termination factor, RNA polymerase I [Source:HGNC Symbol;Acc:HGNC:12397]
Coordinates
chr17:6523841-6524305:-
Coord C1 exon
chr17:6524227-6524305
Coord A exon
chr17:6523972-6524226
Coord C2 exon
chr17:6523841-6523971
Length
255 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
GTGCCCATTTCTTCTATTAGGTA
3' ss Score
8.09
Exon sequences
Seq C1 exon
CTGAGGGCATACCACGAGCCTGGAGACTTATATATTACCGAGCAAGGAAGATATTTGACCCAAATAATTACAAAGGGAG
Seq A exon
GTAAGCCAGTAATTTGAAAGAGTTTAAAGGAAGGTTGATAGCATTCTGTGATGTTTATTTGTTCGTTAAATATGGATATAATTAAGATCATCCCGTGTTTCTGCTGGTTTCTGTGATTTAATGGGCAATTCATTTTTCTAACTAGTTGCTAGAAATCCCTCCAGTATAAAGCGTGACTTGAAATTGTGGTATCTCTCTTACGACGTTGGAAGGGTTTGAATTTGCATGTGAAACTGTGCCCATTTCTTCTATTAG
Seq C2 exon
GTATACTAAAGAAGAAAAAGAAAGATTGAAGAGGTACCATGCTGTCCATGGCAACGATTGGAAGAAGATTGCTGAGAAGATGTCCCGTTCTAATCTCTCTGTTGCCATGAAATACTCTGAAATCAAATCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000027242:ENSGALT00000046072:4
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=0.022
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF139211=Myb_DNA-bind_6=PU(74.1=95.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAGGGCATACCACGAGCC
R:
TGATTTCAGAGTATTTCATGGCAAC
Band lengths:
204-459
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]