GgaINT0123161 @ galGal3
Intron Retention
Gene
ENSGALG00000006706 | LOC419104
Description
NA
Coordinates
chr1:6163617-6163999:-
Coord C1 exon
chr1:6163905-6163999
Coord A exon
chr1:6163683-6163904
Coord C2 exon
chr1:6163617-6163682
Length
222 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
AAATTCTGTGGTTTTTACAGGAC
3' ss Score
8.38
Exon sequences
Seq C1 exon
GTTTTTTTATTCCTGGTTTTCCGAAACTTTTGAGGTTTCAAGAACATCATGACAAAATACTGAATAAGTTTTTGTCCAAACTTAAGCAGCATTTG
Seq A exon
GTAAGTACTCACAAGAACAGTATTTATTAAGGTTGGAAATGGATGAAGAAAAACTGTAAGGATGGAAATCATGTTTGTTTGATTAAAACAAAGTATTTCATGTAGCCAAAAAATATTGATTTCATTGGCCACAAGGCCATTGAATAAAGCCTTTTTACATGGACGTTATTAAGTGTTACTTGATTTTTATGAATATTTTTAAAAATTCTGTGGTTTTTACAG
Seq C2 exon
GACTCTCAAGAGATGTCCACTAGCTTTTACACCACAAAATGGTTTTTCCAGTGTTTCCTTGATCGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006706:ENSGALT00000010845:11
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:
PF0056613=RabGAP-TBC=FE(14.8=100)
A:
NA
C2:
PF0056613=RabGAP-TBC=FE(10.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTATTCCTGGTTTTCCGAAACTT
R:
GCGATCAAGGAAACACTGGAA
Band lengths:
156-378
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]