GgaINT0109133 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:E1BQW6]
Coordinates
chr1:12556920-12557779:-
Coord C1 exon
chr1:12557603-12557779
Coord A exon
chr1:12556994-12557602
Coord C2 exon
chr1:12556920-12556993
Length
609 bp
Sequences
Splice sites
5' ss Seq
AAAGTAACA
5' ss Score
1.87
3' ss Seq
CCTCTCTCTTTTGTTGCTAGGAT
3' ss Score
9.26
Exon sequences
Seq C1 exon
GAAGCAGATAAGAAAATGAGAAAAATGAAAGAGGAGTGTGATGAGCTCCACAAAGAAGTAATCCAAAGGAAAGCAGAAGTTAATGCAATGAAAGAAGACATTTCATCCAAGCAGGAGCTGATGCTAATAGATAAGAAGGAAGTGGAAAAGCTTCTGGAGGACCAGGATAGTTTAAAA
Seq A exon
GTAACACAAAATTAATTATGCACATATCTTCATGTTTGTGCATCTATGTGTGTGTGGGTGTGGCCTGCTTTTGTCTAAGGATGCAGTGAATCTACTGGATGTTGCTTGTCATTCCAAATCATTTAATGGCATTACAGTATGGATTTCATCATTTTCCAATAAGCGTGAGATATACTGCTGTCCCACATTCACTATTATTCCTGTAGGAAATAATAGTAGTCATGGTTTTGATTAAAAATGCTTTCCAGAATGCCATGTTCTATGTTGTGTTATTGTAGGCTCCTCTAACACATCCAACTTTGGACAGATTTGTCCAGAGAACTTAAAAAAACGCACCCAGGCGCAAAGCGTCTCTCCTTTCCGTGGTATGGATAACATATGCAGACATTAATAGCATCCAAGTGTGAATCTTGTTTTTCAGACATAACGACATGGTAAATAACACAGTAATTATTTTCAAAAGCAGCAGCTACAACTCCCTCTGATAAGCTCAAATAATTTCAAAACACGTTTCTGGCCAAGTTTCACAGCAGTTCTGAATGAGTATTAATTCTGTGAAATCACCCACACTGTGAGGCTATGAACCTAACCTCTCTCTTTTGTTGCTAG
Seq C2 exon
GATGAATTAGTTAAGATCCTTGGTGTTCCAGTGCAACTTAAAAAAGAAGCTGAGAAGATAAATCAGAAAAAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008309:ENSGALT00000013526:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.305 A=NA C2=0.160
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGAGAAAAATGAAAGAGGAGTGTGA
R:
TTTTTAAGTTGCACTGGAACACCA
Band lengths:
206-815
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]