GgaINT1021673 @ galGal4
Intron Retention
Gene
ENSGALG00000009118 | PIT54
Description
PIT54 protein precursor [Source:RefSeq peptide;Acc:NP_997063]
Coordinates
chrLGE64:549194-550186:+
Coord C1 exon
chrLGE64:549194-549523
Coord A exon
chrLGE64:549524-549856
Coord C2 exon
chrLGE64:549857-550186
Length
333 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATC
5' ss Score
6.99
3' ss Seq
CTCTCTGGATTTGTCCACAGATT
3' ss Score
10.14
Exon sequences
Seq C1 exon
GGACAGAAATACCTGAGCCAGGGCCACTTCGTCTCGTGGGAGGCCCAAACCGATGTGCTGGAAGAGTCGAGGTTCTTCACGAAGAGCAGTGGGGCAGCGTGTGCCATGATGAATGGGATATCAATGATGCTCAAGTTGTGTGCAAGCAACTGGGTTGTGGGGATGCAGTGCTGGCCCCAATTGCAGCAAAGTTCGGGCGAGGAACTGACACCATCTGGCTGGATGACGTGAACTGCACAGGGTCGGAAGCATCTCTCTCTGAATGCCAGGCAAGGCCGTGGGGGGACCACAATTGTTATCACGGGGAAGATGCCAGTGCAATTTGTTCAG
Seq A exon
GTAATCTTTTCATTCTCCTTTTTTTGCTAGCAGTGTGTTGGGATGTCCTTCATATGAGTGTGGGTACAACCTTGGACAGGAACAAGGGCTTACTACAAAGTACTCCCCATCTGCTGGTGCTGTTGGTTTGGGGTCCTTGTACCATAGAAGAAGGTTTCAATTTGGTAGGTCGTCTCCTCACTGTGGTGCTCTCTGGTCATTTTTCTCCAGCTCAAGCTAGAGGTGAAGGTCATCCATAAGCATGGGAGGGAGATGATACTCAGCAGGGGCATAAACATGCATATGCACAACCTTCTGCCTTCCTGAGCATGCCCTCTCTGGATTTGTCCACAG
Seq C2 exon
ATTCGGGGATCAGCATCTCCACTTCAGTTCGCCTGGTAGGAGGCCCCAACCGCTGCTCTGGAAGAGTTGAGGTGCTTCACAACAATGTCTGGGGGACTGTGTGTGATGACAACTGGGATTTACGGGAGGCTAAAGTGGTGTGCAAACAGCTGGGCTGTGGGACAGCCCTATCAGCCCTGCCGGAGTCAAAATATGGAGAAGGAAAAGGCCAAATTTGGCTGAGCGATTTGAACTGCACAGGGACAGAAGGATCTCTCACTGAATGTGAAGCAAAGCCATGGGGAGAGAATGTCTGCAATCATGTAGAAGATGCCAGTGTGGAGTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009118:ENSGALT00000014844:4
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:
GGGTCGGAAGCATCTCTCTCT
R:
ATCCTTCTGTCCCTGTGCAGT
Band lengths:
343-676
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]