GgaINT0112307 @ galGal3
Intron Retention
Gene
ENSGALG00000017006 | F1N8V8_CHICK
Description
NA
Coordinates
chr1:173515413-173517075:+
Coord C1 exon
chr1:173515413-173515629
Coord A exon
chr1:173515630-173516960
Coord C2 exon
chr1:173516961-173517075
Length
1331 bp
Sequences
Splice sites
5' ss Seq
TCCGTAAGT
5' ss Score
10.27
3' ss Seq
CTATACAGAATTCATCCAAGGAA
3' ss Score
-1.74
Exon sequences
Seq C1 exon
GCAGGTTAATGAGCAGAGCTGAAGTTCAAGAGCTGGGAGGTGCTGATCAAGACTTGAAGGAGGAGAGTGCTGTGAATGACAGAGGGCAAAGCTTCTTCTCCAAAAAAAGAAAACTCGACTCCAGCTGTTCAGACTCTGAGATTGAACTCGTGCTGACTGGCAAAGATGACATTCTTGAGCATCAGCAGTCTGCTGTTAATGAAAATGACTCAACTCC
Seq A exon
GTAAGTTTACCAAATGTAAAACGTAATATTCTGATATTCTAGAGTGTCCCCTATAGAACATACAGTAGAATTGAATGTTGTTTGCTGAGAGGTGTTTCTTTTACTTTTTCAACTCCTGGTTATTAGTTCTAGTGGGATAGAGTGATTCCTACATACTAATTTTCCTCACAACGTGCATCACTTGGCATTTGCTAGAAATCCCATTTCTCTCCTGAGTGTCTTCACCTCTTCAGGGCATGAATCATTATGCTAGCTTGAAAAGAGAGAAACAATTAAAAACATACTTGATGACACTAAAGGATTTGATAATAAATTAGCCACTAAGCGTACTATTCTTTGCTTCCATCTCTAAACCTTTTCTTCTTTGTCCCTTGACCCACTCTGCTAGGACTTCTAACCTTGCCAGTTAGGAGTCTGACAGTGCCTTGCTTTTGCAGGTGTTGTTGCAATACACAGAAATTGTAATCTTGTTTACACCTCATGGTCTCATAGCCTATCAGGATTCCTGAAATAAAACCACTGCAAGGTAATGCATGTGGCCTCAGCAGTAGCATACTGTAGTCTTTTTCAGAAGGACACGAGGAGCTTGTTTCCCTCAACTTTCTGCCTTGCTTTGCTTACACTTTCTTTGTAATACCTGTAAGTAATTGCAAATACTCGTTCTGTGAGGAAAGGCTGTTGTAGATCTTTGAGAAGCACAGTAACATCACAAACAGAAGCTTTAAAAAAAAAATACCTGCCAGTATATTCTCATGTTTTTGTATCTTGGGAAGCTAGCAAATTAATAATGCTGTAAATTACTTAATTAGCAGCTGTTCACTGGATGTTATTTCTAATAGGTCTTCTGCTATAAATTGTAGGGAAGAATAACATAAATGTGACTTCTGATGTTGTAGGGATATATACCAAATACTGCTTCCCATCCTTCACGCTTTCACATCAGGTGAAGGTTGAGATTCTTCTGTGGGAGAGCGTTTTGTATATCTGCTGTATATTGACTGTCTCACCCTGTATTCTTTCTCCCCTGACGTTTGTTTTGCTTTCCTGTTTTAACACTATAGTATAGCTTCAAACTATTGAAAGTAATAGCAGGAGAAAGGCAGAACACTGTAGGTGCTCTATGTTGAGGTGAATCGAACAACAGAGAATTTGTTTCTCTGGAGCAGTGAACCTTCCATTCTTAAAGGCAGTTTGAGGTGAAAGTAGAACTACAGGCTATGATCTGTTCTTCACGAGCTAGAGACTGTTAAAGAAACATATGTTGTGAGAGTTATTTATGTGTCTGTCTTTTGCAATTTCCCTTTGAACTCCCTATACAGAATTCATCCAAG
Seq C2 exon
GAATTTGAATACTGCAGCCACGAGAAGGCTTGGAACTAGAATAGCTGTTGTGGATAATCACCAGCTGAAAATGGTAATGTTAATAAGTGGCTTTAAAAGATTTATGTTCACTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017006:ENSGALT00000036477:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.247 A=NA C2=0.282
Domain overlap (PFAM):
C1:
PF0085623=SET=FE(34.3=100)
A:
NA
C2:
PF0085623=SET=FE(18.1=100)
Other Inclusion 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:
GCAGGTTAATGAGCAGAGCTGA
R:
ACATTACCATTTTCAGCTGGTGA
Band lengths:
297-1628
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]