GgaINT0123736 @ galGal3
Intron Retention
Gene
ENSGALG00000008532 | Q5ZLK9_CHICK
Description
NA
Coordinates
chr17:2307225-2308092:+
Coord C1 exon
chr17:2307225-2307337
Coord A exon
chr17:2307338-2307989
Coord C2 exon
chr17:2307990-2308092
Length
652 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGG
5' ss Score
8.05
3' ss Seq
ACTTTTACCTCTTCTCTCAGGGA
3' ss Score
9.83
Exon sequences
Seq C1 exon
TTCACGTGGTGCCTTGATGCCTGCATTCGGGAGAAGTTTGTGGACAACAAGAGAGCTCGGGAATTGCAAGGCTTTCTGGATGGAGTGAAGAAAGGACAAGAGCAAGTTTTGGG
Seq A exon
GTAAGGTGCTTAGGGTCTTTATTGAGAGACTGCAAATTGGGTTCCAGTTGTCACAATATGTGACATACTTCAGGTGTTAATTCTTCCCTAAAACCAGCTAATTCTACATGGTCAAGTGCAGTAGGTTCAGCAACATTATTGCACTAGGGCATATTCAGGCACCTTCAGGTGAGATCTTGGTAGTGCTTCAGTTACCTTGAGTAATTGTTGCAGGTTTCTCTGGGACCTCATAACTGTGTGAGCTTTCCTATTTCATTTCAGCTCTAAAGACCTTTGGTAATTATTTTATTTGACTCGATAGAGCAGGTTATCTGAAATAACATTCATGATGTTTTGACAAAGGCAGGAGAAGGTTTGTGGAATGAAAACCTATAGGTAACAAAAGACAGAAATTTGAGTTTTATGTTACAATAGTTAAGGTATTGTTGCCCTTTAACACAGCAGTTTCTGGGTTTTTTGTTGATTTATTGCATGTACTACTTTGGCATTACATCTCATAGTTGACAGGATTACAGGATTACAACAGCGTGCTCTGTTCTGTGTTCAGTGAGACACATCTTAAGAAGCTAGTGTCCTACAGCTGGGTATGAAACTAGTCTGCTGCATTGTTTGTTAGGTGTGACATGTATTTGACTTTTACCTCTTCTCTCAG
Seq C2 exon
GGACTTATCGATGATCTTGTGTGATCCCTTTGCCATTAACACCTTAGCCCTGAGTACCATAAGGCACCTGCAGGACCTAGTTGGGCAGGACACCTTACCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008532:ENSGALT00000040215:6
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:
PF062098=COBRA1=FE(7.8=100)
A:
NA
C2:
PF062098=COBRA1=FE(7.2=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:
TTCACGTGGTGCCTTGATGC
R:
CTGGGTAAGGTGTCCTGCCC
Band lengths:
215-867
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]