GgaINT0142521 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NK40]
Coordinates
chr27:1688356-1689137:+
Coord C1 exon
chr27:1688356-1688449
Coord A exon
chr27:1688450-1688965
Coord C2 exon
chr27:1688966-1689137
Length
516 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
3' ss Seq
TTCTGCTCTACTATTTCTAGGCC
3' ss Score
8.27
Exon sequences
Seq C1 exon
AATGCAGCACTGAAGCTTCTCACCAATGCTAAGACAAGGGATGATTGCAAAGTGCTTTACAAGCCTCAGAGGCACTTTTTGATGGGTGCTCCAG
Seq A exon
GTCAGCATCCTGCCAGCATGCCCTGGAGACATTCAAAGCCAGGCTGGATGGGGCCCCCAGCAGCCTGATCTGGTGGGGGGCAGCGAGCCCATGGCATGGGTTGGGGCTGGTGGGCCTTTGAGGTCCTTTCTAACTCAACCATGTCATGATTTCGTGTTTCTATGATCTTTAAGGTTCCTTCTAACCCAGCCATATCATGATTCTATGGTTCTACAATCTTTAAGATCCCTTCCAATCCAATGTCATGATTCTACAGTTCTGCAATCTTTAAGGTCCCTTACAACCTAAACCATTCTATGATTCTATGATCTTTTTGAAGAGGCTTCATACGGGGGGGGCTGGGCTTGTGTCTCCGCTCTTGGTGGGATGGGGAATGTTGTCTGACAGGGCTTCCATGCTGGCTCAGTTCTTGGTTGAGGGGATTTTGGCTGCTTTTGTCTGCCTTCTGCAGATGTCCAGCCCTGAGCTAGGCAGCAGAAACCCATGGAAACCTCATTTCTGCTCTACTATTTCTAG
Seq C2 exon
GCCCAGCCAGGTCCCATGCCAGAGAAGATACAATGGATATGGTCATGGTGGAAAGCGGGTTAGAAATGCCCATGTTAGCTAGTGTGCCAGGTGCTCCCAGCAACGAGGAAGAGCCACCAGCTCCCCGGACTCATTTCCCAGAGACATGGCTGTGGGACCTGGTGCCCGTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000293:ENSGALT00000000384:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.062 A=NA C2=0.379
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0020717=A2M=PU(10.0=15.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGCAGCACTGAAGCTTCTCA
R:
CAGGTCCCACAGCCATGTCTC
Band lengths:
254-770
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]