GgaINT0036554 @ galGal3
Intron Retention
Gene
ENSGALG00000008974 | E1BWB2_CHICK
Description
NA
Coordinates
chr8:19686150-19687224:+
Coord C1 exon
chr8:19686150-19686288
Coord A exon
chr8:19686289-19687170
Coord C2 exon
chr8:19687171-19687224
Length
882 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
TTGTGTGTTTATTGGAACAGGGC
3' ss Score
6.8
Exon sequences
Seq C1 exon
TGCCTTCTTGGTCTCGGAAATCCCAGCTTCTGGATCTTGGCAAACAAAGCATCTGAAAATGTCATCACTCAGCAGCAATTGCCCACACCTGGAATCGGTTGGTGAGATAACAAAAGAGGAATTGATACAGAAGTCTCAT
Seq A exon
GTGAGTTGTAGCACATTCCTTCCTTCCTATCTCAGTTAAATGTCCTTATCAATTTAGTTGCGCAGCTCATCATGTATTTAGAGTATATTTCCCATCAGTGTTTTTGAAAGCAAGTGATGTTTTAATGGAAATATCACTTAAAAGAGAGAAGCAGAACTTCGTCAGATGCTGCTATTGTGGCAATTAGTTACTTAGATTGTGGAAGTGTAACTATAGAATAGGTAGTATAACTGATGTTTCGAGTGGAAACTGTAACAGAGAAATATCTACTTAAATCTTTGTTGGATCACAGTTTACTTTCTGATAGAGGAGCCACAGGTTGAAAACCTGTCTGAACTCTTGGTTTCTAGCTAGTTTTAATAAAGAGAAGAAAGGACTTTGTAACTCATTTTAATAACTGGGAAGTGATCAAAAGTCAACCCTTTTTTGTCCATGGTACTGTATTTCTTTGTAGAAGTGGAGCAGTTGTTTGCTGCTGAGGGGAATACTTTTGCAGGGAGTGTTGAATGTATGGAAATAGGGATGTGCAGGTGTTGTAAGTTCCACTTTCATTTCTCTTGATGTTAAATTGATGAGCAAGACCGATTTTGATGATAATGTAATATGAAATATATTTATGCTTTATTTAGAGGAACGTTTCTTCAGATGAAATCTCAGAGCTGTAAGACTTTACTACAGATACACGAAGCTTAAAATTGGGTTAAGATAAACAAAAATTGAGCTAGTATCAGCATTCTTTTTTTCTGTCTTAAAAATTAGTTGATGGTTGAAATTCAGTTGATAGTTGGTCTTACAGTATTTTTTCTCAGTTTGTCTTGAGGTTGTGGTTTACTGATGATAGTAAATTAAAATCATTCTTTGCTTGTGTGTTTATTGGAACAG
Seq C2 exon
GGCAGTTGTCAGGACTGTAAAGTCAGAGGACCCAACCTTTGGGCATGCTTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008974:ENSGALT00000014598:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0214814=zf-UBP=PU(22.7=83.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTTCTTGGTCTCGGAAATCC
R:
CTCCAAGCATGCCCAAAGGTT
Band lengths:
192-1074
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]