GgaINT0047059 @ galGal3
Intron Retention
Gene
ENSGALG00000009172 | E1BQU1_CHICK
Description
NA
Coordinates
chr7:16539645-16540174:-
Coord C1 exon
chr7:16540090-16540174
Coord A exon
chr7:16539899-16540089
Coord C2 exon
chr7:16539645-16539898
Length
191 bp
Sequences
Splice sites
5' ss Seq
AAAGTATAC
5' ss Score
-0.39
3' ss Seq
ATAGTTTTCTCCCTTCCCAGTTG
3' ss Score
7.81
Exon sequences
Seq C1 exon
GCTTCTGATGATGAATCCTATATCAGTGATGTGAGTGATAATATATCTGAGGACAACACCAGCGTCGCTGACATTTCTCGGCAAA
Seq A exon
GTATACTGCTACATTTTGAGCTTTGGGAAATTGTGTTGGTTTTGTGATTTGTTACTTCTCTGTACAAGTCCAACTTCGCTGAAATCAGTGAAGCTGGGCTTATTTTTTCTGGTGGTGAATTTAGTTCAGTGACTGAGACTGTTTTCCTTAATATGGTGCTTTGTTGTGATAATAGTTTTCTCCCTTCCCAG
Seq C2 exon
TTGTCAATGGTGAACTAACTGGAGGAGCGTTCAGGAACGGACGGCGAACTTGTCTCCCAGCTCCCAGCCCTGACACCAGTAACATCAATCTATGGAATATCTTGAGAAATAACATTGGCAAAGATCTTTCCAAAGTATCCATGCCAGTTGAGCTAAATGAACCCCTGAACACCTTGCAACATCTTTGTGAGGAGTTGGAATATAGTGAACTCTTGGACAAGGCTGCTGAAACGGATGATCCCTATGAGCGCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009172:ENSGALT00000014942:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.655 A=NA C2=0.094
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0123713=Oxysterol_BP=PU(15.6=64.7)
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:
TCGCTGACATTTCTCGGCAAA
R:
CAGCAGCCTTGTCCAAGAGTT
Band lengths:
249-440
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]