GgaINT0016199 @ galGal3
Intron Retention
Gene
ENSGALG00000004050 | F1NWE0_CHICK
Description
NA
Coordinates
chr14:2268013-2269067:-
Coord C1 exon
chr14:2268926-2269067
Coord A exon
chr14:2268482-2268925
Coord C2 exon
chr14:2268013-2268481
Length
444 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
CTGTGCTCTTGGCATCGCAGGGC
3' ss Score
7.39
Exon sequences
Seq C1 exon
GGAACAACAGTGATTCCTCTGCTCTCCTCGGTGCTGCTGGATAAAACACAGTGGGAGACGCCAGATGAATTCAACCCCAACCACTTTCTTGATGCAGATGGGAACTTTGTAAAGAAGAAAGCGTTCCTCCCCTTCTCCACAG
Seq A exon
GTAACAGAAGGGTTTGGCCAGGCACTGGGCTGAGTGTGCAGCCAGGTGTGAGCTCTGCCAGGAGCAGCACAGGTCAGCGATGGGGATGCTGTAGCAACATTCGCTCTGGGTTTCAGTGAATTGCAAAATTCAGTCCTTAATGGGAGGTACACCAGGCCGTGGGGTTTAAAGACACCTCTGGGACTCAAGCAGGAGTTCCTCCTTCCCTCTTCCTTAGGAAGAATGGTTTCTAGGTTGTCCCAAACCAGTGCCTTGCAGGCTTGGAGTGAAGCCGCCCTGCTCAGATACGTATAGGAGACCAATGGCGATGGCTGCTGAACCTCACCCCACTATGTCTGCAGTTCTGCAGCCTGTTCTGTCCCTCACACTGTTGCTACCAAGTGGTAGGGAAGATTTCTCAAGGAAACTGCCACTCCACAAACCTCTGTGCTCTTGGCATCGCAG
Seq C2 exon
GGCGGAGAAACTGCATTGGAGAAAGCCTTGCCACGGTGGAGCTCTTCATCTTCTTCACGGGCTTGATCCAGAAGTTCACCTTTAAGCCTCCACCCGGGGTGAAAGAATCAGAGCTGAACATGACAGCAGAGGCCGGGTTCACCATGAGGCCATCCCCGCAGTGTGCCTGTGCTGTGCTGCGCCGTGAGCCCGAGCCTCATAGTGCAGGAAAACCCACGTAGCTCACTGCGGAGCCCAGCAGATGCACACAGGAGAAACCAGAGCTCCCTATGCAGTATTTAGCAGTAAAGCCTTCTTACTCAAAGCCTTTCAAAAACTGGCTCTGTGCTTAAAATGTGTGTTGAGCAAATGGTTTTGTACGAAGCAGAGGAGAGCTGGGGCTGAGGTGAGCTGGGAATAGCACCCAACATATGATGGGGAGTGACAGAACTATCGCTACTTCACACATTAAATGCACAATGTAAGGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004050:ENSGALT00000006446:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.042 A=NA C2=0.301
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(10.3=100)
A:
NA
C2:
PF0006717=p450=PD(12.5=77.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGCCAGATGAATTCAACCCC
R:
AGGGAGCTCTGGTTTCTCCTG
Band lengths:
354-798
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]