GgaINT1021672 @ galGal4
Intron Retention
Gene
ENSGALG00000009118 | PIT54
Description
PIT54 protein precursor [Source:RefSeq peptide;Acc:NP_997063]
Coordinates
chrLGE64:548406-549523:+
Coord C1 exon
chrLGE64:548406-548735
Coord A exon
chrLGE64:548736-549193
Coord C2 exon
chrLGE64:549194-549523
Length
458 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
CCTATTTATTCCATTTTTAGGGA
3' ss Score
9.52
Exon sequences
Seq C1 exon
AAGATGTAGATACCAGTACACCTGAGGTTCGCCTGGTGGATGGTCCAAACAGATGCTCTGGAAGAGTCGAGGTGCTTCACAATGATGTCTGGGGGACTGTTTGTGATGAAGGTTGGGATTTACGGGAGGCCAGGGTGGTGTGCAGGCAGCTGGGCTGTGGGACAGCATTATCATCCCCCAAGAAGTCAAAATATGGAGAAGGGAAGGGCCAGATCTGGCTGAGTGATTTGGACTGCAAAGGGACAGAAGGGTCCCTCTCCAACTGCAAGTCGAAGCCATGGGGAGAAAACATCTGCAACCATGTGGAAGATGCCAGCGTGGAATGCTCAG
Seq A exon
GTAACCCCCAGATCTCTTCTACTTTGTGTCCCTTCTGTCTTAAGAAAGCTATGGTGCTATTTCTGAGCCATCCAATTAGGAGGCTAGGGATTCAGAGTGACTTTGCTGAGCTCTAGCATCCTATCACCTTGATCCAGAGAAGCTGTATCACATGTCCTACAGAGCTGGAATTGGATACACTTGGTCTTCTCCCTGTTTTGACAACCTCCATCCTGTTTTTTATTTCTCCACAAACCTCTCTTTTTAGCCAGAAGGTAGGAGGGGAGCCTTTGGCAAGTGTTAGGGATGAGCAGAGAGTTTTGATTCATTGCGGAAGATTTTGCTTTGTTCAGGGGGTCAGGGGCACAGAGACTTCTCCAAAACTTCTCCCTGGCTTGCTTTTTTGTTTGTTTGTTTGTTTTGTTGTTGTTGTTGTTTGTTTGTTTGTTTGTTCATTTACCTATTTATTCCATTTTTAG
Seq C2 exon
GGACAGAAATACCTGAGCCAGGGCCACTTCGTCTCGTGGGAGGCCCAAACCGATGTGCTGGAAGAGTCGAGGTTCTTCACGAAGAGCAGTGGGGCAGCGTGTGCCATGATGAATGGGATATCAATGATGCTCAAGTTGTGTGCAAGCAACTGGGTTGTGGGGATGCAGTGCTGGCCCCAATTGCAGCAAAGTTCGGGCGAGGAACTGACACCATCTGGCTGGATGACGTGAACTGCACAGGGTCGGAAGCATCTCTCTCTGAATGCCAGGCAAGGCCGTGGGGGGACCACAATTGTTATCACGGGGAAGATGCCAGTGCAATTTGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009118:ENSGALT00000014844:3
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:
PF0053013=SRCR=WD(100=88.3)
A:
NA
C2:
PF0053013=SRCR=WD(100=88.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATGGAGAAGGGAAGGGCCAG
R:
CAGATGGTGTCAGTTCCTCGC
Band lengths:
356-814
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]