GgaINT0120893 @ galGal3
Intron Retention
Gene
ENSGALG00000008461 | F1P302_CHICK
Description
NA
Coordinates
chr1:11504934-11505751:+
Coord C1 exon
chr1:11504934-11505008
Coord A exon
chr1:11505009-11505604
Coord C2 exon
chr1:11505605-11505751
Length
596 bp
Sequences
Splice sites
5' ss Seq
TCGGTACAG
5' ss Score
3.7
3' ss Seq
ACTTACTTTGCCTAATTTAGTTA
3' ss Score
6.08
Exon sequences
Seq C1 exon
GAATAAGCATATCTGTGGAGGTACTCTGGTAAAGGAAGAGTGGGTTCTCACAGCAAGACAGTGTTTCCCATCTCG
Seq A exon
GTACAGTAGTCTGTAGTCTTGCAATATTAAAATACGTGCAATTTCTGTAACTCAGTAGCACATACTTCCATTTAAATGCAGCAGTTATCACTCCTGTTTGTCTTTAACACTGCTCTTTTGATGTCAAAATTCCTTAGAGGCCTTGGCACTTTCAGTTTTTTATCACTGTTAATCTAAAAGAAGCCTGGCTGTTTTACACAGGAGTACGAATGTTATCCAAGTGTAGTAGTTACACAGCTACCTCTTTGTGGAAATAATCTTACGTTTTTTTCTGAACTGGACAGAATGAAGTAGAAGTCCTGGGCAAACTTTGAAAAGTTTGAAGGTTCACACTTTACAAAGATTTAAATGCTTTCATTCTAGTAGAAAACAAAATCACATTTTAGTCACACTTAATGATGAAATTATGCAGTGGCTTCAGACCAAAAACTTATATTTGAGGATATTGATTTTGGAATAGAAATTGGCAATGTAAACTGACTTCTAGTGAAGCGTTTGTTAGTTAAGATCTTGTAGTATAATCATGTTAAGCAGAGCTTTTGGGGGTTATTTTATTATCCATGCAGCAAAATCCTAACTTACTTTGCCTAATTTAG
Seq C2 exon
TTACAAAGATCTGAAAGACTACAAAGCTTGGCTTGGAGTCCATAATATCAAAGGAAAGGGAGAAGAGAAGCACAGGCAAGTTCGGAATATCTCCCAGCTGGTATACGGTCCGGCAGGATCAGATCTGGTTTTACTAAAACTTAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008461:ENSGALT00000039793:15
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:
PF0008921=Trypsin=FE(11.2=100)
A:
NA
C2:
PF0008921=Trypsin=FE(21.9=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
ACTCTGGTAAAGGAAGAGTGGGT
R:
TTAGTAAAACCAGATCTGATCCTGCC
Band lengths:
190-786
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]