GgaINT0053615 @ galGal4
Intron Retention
Gene
ENSGALG00000009315 | PAPLN
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:HGNC Symbol;Acc:HGNC:19262]
Coordinates
chr5:25589641-25590365:-
Coord C1 exon
chr5:25590190-25590365
Coord A exon
chr5:25589817-25590189
Coord C2 exon
chr5:25589641-25589816
Length
373 bp
Sequences
Splice sites
5' ss Seq
GCAGTGAGT
5' ss Score
7.39
3' ss Seq
TACCTTTTACTTGGCTGCAGCAA
3' ss Score
6.09
Exon sequences
Seq C1 exon
AAATGGAGTCCCAGTGCGGGCAGATGGCCGCCATATCCACCTGTCCCAGGATGGAAGCCTGATCATAAGCAACATTCAGTTGGCTGATGAGGGATCCTACACCTGCAGTGCCTACAGCAGCAGCAACTCTGTCAGTGCCAGCACGGAGGTGAAAGTGTTGAGGAGCAGGCCCAGCA
Seq A exon
GTGAGTACAACTTGTCCTCCCCACTTCTCTCGGCTGTTACTAGAAAGCTGCCCATCATGCGCCCATCCACTACCAGTCCTGGGCTTTGGGGAGCAGCAGGAGCCTCTGGGTGGGCGTGAGAGCAGGGTGGTAGAAACGGCCCCCCACCAAGGCACTGGGAATCGGTCCCAGAAACTGCCTTTTCTTTCTTTATCCAACTGGAGTTGTCAGTTTCTCTCTCTGGTCCTTGATTTGGAATGTAATTAAACAATCCCCCTTAGAACTGGAAAGATGGAGAAAACAGGAACCCACTGTGGTTTTGAGGAGGGAAAATAAACCTGGGGACAAGCCCTGGCAGTGTTTTCAGCTGGCTTTACCTTTTACTTGGCTGCAG
Seq C2 exon
CAACTGTGAATCATGTTGTGGACCTGAACAGAGAATGTGTGGACCAGCCACACCTTGCCAACTGTGGCCTGATCGTGCAGGCCCAGCTCTGCGGTAATGAGTACTATGCCAGCTTCTGCTGTGCCAGCTGCTCTCGCTACCAGCCGCACGCCAGCCCTCCTCATCGCAGTGGGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009315:ENSGALT00000015156:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.083 A=NA C2=0.121
Domain overlap (PFAM):
C1:
PF0767911=I-set=PD(59.8=86.7)
A:
NA
C2:
PF086866=PLAC=WD(100=59.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGATGGCCGCCATATCCAC
R:
TCACCCACTGCGATGAGGAG
Band lengths:
332-705
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]