GgaINT1021671 @ galGal4
Intron Retention
Gene
ENSGALG00000009118 | PIT54
Description
PIT54 protein precursor [Source:RefSeq peptide;Acc:NP_997063]
Coordinates
chrLGE64:547548-548735:+
Coord C1 exon
chrLGE64:547548-547574
Coord A exon
chrLGE64:547575-548405
Coord C2 exon
chrLGE64:548406-548735
Length
831 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
GGGGCATCTTTTCTCTCCAGAAG
3' ss Score
6.27
Exon sequences
Seq C1 exon
CTTCCCTTGCAGGAGTCCTGCTGGCAG
Seq A exon
GTCAGTATTTGTATCAGTCAGTGGAATTGTGAGTGAGCATTCACTTCTGTCATAAAATGTCACAGAAGCTATAATATCCTCAATATTGAAGTCTGATGTCAATCATATGAATGTTCGCTCGACTCCTCCATGAATGAGTGAGAAGGCGTTTCAGGTTTCAGACCCTCATTCAGTTTGGTCCTAGAGTTATTCCCTCCCAGATCCATGCAAAGGGATGATGGTACCTAGAGATACTCTCTACCTAGAGATAGAAATCATGGAAGACATCATGATTTGAGGATCAGCAAGGGGGGGGGCAGGTTTTGAGAGGTATTGAGTTTCCTCCTGGGTTCAGTAACAGGACTAGGACTGAGTAATTAAGCAGATCCTTTCCAGTCCTGGATGCTGACCATATTCAGGTCTGTAATAGCTGTGTACCTGCAAACTCTGCCCCTAATTGAGGAAATTCAACCCTTCCCTTTGGGGAAGAATGAAAAATTCTCAGTTCTCTCTTCCCTGCTAGAAGCCCAGTGCCTCGTAGTGGCATGTGGCCTTAACCCTGGGGAAACTCACCCAGTAAGAACACTGGGGGAGTTTTGGGGTGGCTACATTTCTCCCATTACAGCTGAAAATGAACCCTGTGATATGTTTTTCAAGATGGACTTCTGGTCATATAAACAAGTGCAGCATTTGACCATTCTCAAATCAAAACCATCTTTCAATCAAACTAAGATTTTATATGCCAGTTTTGGCAATAAACATCTTGATTTGGAATTAAATAAAGGCTCTATGGGAAGGAAGAGCCCTCTTTCTCATTCCCTGCTTTCATCCTGGGGCATCTTTTCTCTCCAG
Seq C2 exon
AAGATGTAGATACCAGTACACCTGAGGTTCGCCTGGTGGATGGTCCAAACAGATGCTCTGGAAGAGTCGAGGTGCTTCACAATGATGTCTGGGGGACTGTTTGTGATGAAGGTTGGGATTTACGGGAGGCCAGGGTGGTGTGCAGGCAGCTGGGCTGTGGGACAGCATTATCATCCCCCAAGAAGTCAAAATATGGAGAAGGGAAGGGCCAGATCTGGCTGAGTGATTTGGACTGCAAAGGGACAGAAGGGTCCCTCTCCAACTGCAAGTCGAAGCCATGGGGAGAAAACATCTGCAACCATGTGGAAGATGCCAGCGTGGAATGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009118:ENSGALT00000014844:2
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:
NO
A:
NA
C2:
PF0053013=SRCR=WD(100=88.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
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:
CTTCCCTTGCAGGAGTCCT
R:
GCTGGCATCTTCCACATGGTT
Band lengths:
344-1175
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]