GgaINT0145312 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NRZ0]
Coordinates
chr28:541356-542492:+
Coord C1 exon
chr28:541356-541473
Coord A exon
chr28:541474-542373
Coord C2 exon
chr28:542374-542492
Length
900 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TTTCCCCATCTGTTCTGCAGGGT
3' ss Score
10.4
Exon sequences
Seq C1 exon
AACCATAGCTCTGCCCCTGGGCAGGAGGCTGGGAGTGAGAGACAAGCGGAGGCCCAAAGCTCAGCCCAGTGCCACACTGGAAGGCTTCTACAAGCTGCTGGGCAGGACTCCAAAGGAG
Seq A exon
GTGAGTGCCCCTGTGCTGAGAGCCCACGCAGCCAACACCTCCTTCTCCCGTTGCCAACCACCATTCTGGGGCAGAAGGAGATATTTCACCATCCACCAATGCATTCTGCAGCCACAGCCCCAGTGATATGTGATCTGATATGTGTCAGATCGAGCAGATAGCTGGGAGCTGTTGGCTTTCCTGGTGAAGCAGCCATCTCCCCATGGTGGGCAGATCCTGCGGATAAGGCTCCTTATCTTTAGCAGAGCCCTTTGGATCACTGCTCACAGTGATATGTTCCCAGATCTATAAAGTAATTATTGACTTAAATTAGTATGAAGCTTTGTCAAATTAATTTAAATAAATGGTCCCAAGCTCAACTCTATTCTTACCTATTTTATCTCTATTTTAAGGCTAGGCAGTTTTATTGGGACTGTGTATGAAACAGATCATGATGGAAATGGTGCTTTTGGGGCTGTTTGTTGCTCAAACAATTGGATGTTCCATCTGATGTCACTGAGAGAGCTAGTGTGTTGCTTCTTTCTCATCACAAACTAAGTTTATTTTATTGTTGTTTGCCACACACAGGTGATGATCATCTTTCAAACATGCATCAGAGGTGAAAAAATTTAGTAGTTAGACTTTCAGAGCAGGCACTGACTCCCACTGCTGGCAGAATTGGGCAGGGTGAGCCTGTGCTAAGCTCCAAACCTGGGTTTACGTATTTCCACACTGGAGATTTAGAATGGCCAAAGGGATGTGGGAGGTCAGCAGTGCAAACATGGCAGATCCAATTCTTTCCCAAAGAGAGGTGGTCTGTGGGGAAGCACGGACCCAGGGGGGCAGAGGCAGCCCCTGCCACCACATGGAGACACACAGGGTCAGGAAGGCAAAGCGCTGCTTTCCCCATCTGTTCTGCAG
Seq C2 exon
GGTGACCTGATTTCAGTGGCCAAGCAAAGTGGCCTGCCAGTCAGAACAGTGCAGACCTGGTTCCGGCACCGGCGGGCCCAGGACCATCCCAGACTTACAAAGAGGTTCTGTGAGGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000406:ENSGALT00000000553:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(46.4=65.0)
A:
NA
C2:
PF0004624=Homeobox=PD(50.0=70.0),PF0379811=TRAM_LAG1_CLN8=PU(2.6=12.5)
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:
AACCATAGCTCTGCCCCTGG
R:
CGCCTCACAGAACCTCTTTGT
Band lengths:
235-1135
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]