GgaINT0134438 @ galGal3
Intron Retention
Gene
ENSGALG00000004568 | E1BQL7_CHICK
Description
NA
Coordinates
chr21:5730244-5730855:+
Coord C1 exon
chr21:5730244-5730341
Coord A exon
chr21:5730342-5730726
Coord C2 exon
chr21:5730727-5730855
Length
385 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
TTAGCTCTTTTCTTGTCCAGTTC
3' ss Score
7.16
Exon sequences
Seq C1 exon
GCCTCTCTTCAATATCAATCAAGTGGTAAATGGTATCACACCTGTGGAGGAACCCTCATTGCAACCAACTGGGTGTTGACAGCTGCACACTGCATCAG
Seq A exon
GTAAACCATTGAGTTAAAGTCTGTGCTCATAAAGCAGTGCATGACCAGAGACAGATGAAGAAAAAAAATCATATTAATGCCAGTTCCCTCCTTCCCATCTAAGAGCTCCATGTTTTGTCCACTCTTCATACTACAGGAAAGTAAAAGAAACGATCAGGTACAAATATGCTGCCCCATCATCAAAATTGTTTCCATGGAGACAATCCCACTGTGGTTTGTTATCGTATGTCCTTGAATATGCTCATGCACTACACACTGGTTATGGCATTACGAGGTGGTAGAGGAGATAGTCACATGGAATAGGAAGGATTGGCTGCATGTTATTACTGACAATCTGATAATTTGATAACTAACACAGCTGAATGTTAGCTCTTTTCTTGTCCAG
Seq C2 exon
TTCTACCAGGAAATATCGAGTGCTTCTTGGAAAATACAACCTAGAAGCTGAGGAGCAAGGATCTGTCACAGCCTCCACAGAAAAAATCATTGTCCATGAGAAATGGAATCGGTTCAGCGTTGCAAGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004568:ENSGALT00000007270:3
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(13.7=100)
A:
NA
C2:
PF0008921=Trypsin=FE(18.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
GCCTCTCTTCAATATCAATCAAGTGG
R:
CTTGCAACGCTGAACCGATTC
Band lengths:
224-609
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]