GgaINT0097808 @ galGal3
Intron Retention
Gene
ENSGALG00000011007 | F1NN81_CHICK
Description
NA
Coordinates
chr2:31578499-31579353:-
Coord C1 exon
chr2:31579209-31579353
Coord A exon
chr2:31578626-31579208
Coord C2 exon
chr2:31578499-31578625
Length
583 bp
Sequences
Splice sites
5' ss Seq
CAAGTTAGT
5' ss Score
4.22
3' ss Seq
TGTTCTTTTTTCTGCTGTAGATC
3' ss Score
11.26
Exon sequences
Seq C1 exon
GCAAAGTATTGGAATCCAAATGCACATGAGATCGAAGGCAGTGTCATGGATAAAACTGGGAATGTTGTGCATCGACTCTTTGGGAAGTGGCATGAAAGTTTGTACTGTGGGACAACTTCATCTTCAAAATGCATATGGAGAGCAA
Seq A exon
GTTAGTGACCAGAACTTAGAATATGCTTGAGAATATCTATTTTCTATCTATTTTAATCTACCTCAACTTCTTGTTGTTCCTGCAAAAAAAATTGGAATTTTTTCACGGATTTAAAATTTAGACCAGAAAAAGAAATAATTCAAATTATATTGGGAACTTAATCCCATGGCTTTCCATATTTTCCTCATTCTCATTCCTTTTCATATCTGGCTATGAAGAAGGTATTGAGGACTCTAAAAGCGAACAAAAAACAACAAACAAAAAACCACTTTATTGTGTGTGCAGAGAACTGTGGTGGTTTTCATGTATATTAAACATTGGAGATTGTACACATAGCTCAGTTCCATAATGAGGACCATATCTGAAGTTCTCCCAAACCTTGTGGGATTTTATCTACTGAAGTTTGAAAAACCACTATGATTGTAGAATGTGTTTCATTGCTCTTACGCTTTGATTCAACTTATTCCCCAAAATTGAGGCCACAATTCAGAGATTTTAAAAAAGATTGAGGGGAGTTTGGTATTGTCCTTCTAAAGATAGTAGCATTTAATTGGAATTCTAAATGTTCTTTTTTCTGCTGTAG
Seq C2 exon
ATCCAATGCCTAAAGATTATGAACAGTGGTATGGATTTACTCAGTTCGCATTGGAGTTAAATGAACTGGACCTGCAAACGAGGTCATTGCTCCCATCCACCGACACACGCTTTAGACCAGACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011007:ENSGALT00000017923:19
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=0.019
Domain overlap (PFAM):
C1:
PF0123713=Oxysterol_BP=FE(13.9=100)
A:
NA
C2:
PF0123713=Oxysterol_BP=FE(12.1=100)
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:
TTGGAATCCAAATGCACATGAGA
R:
TTGGTCTGGTCTAAAGCGTGTG
Band lengths:
262-845
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]