GgaINT0053593 @ galGal4
Intron Retention
Gene
ENSGALG00000009315 | PAPLN
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:HGNC Symbol;Acc:HGNC:19262]
Coordinates
chr5:25610906-25611848:-
Coord C1 exon
chr5:25611768-25611848
Coord A exon
chr5:25611079-25611767
Coord C2 exon
chr5:25610906-25611078
Length
689 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGA
5' ss Score
8.91
3' ss Seq
TGGCATGTGGGTTTATCCAGCTG
3' ss Score
4.31
Exon sequences
Seq C1 exon
GGTACAATCAAATCTTCATCATCCCTGTGGGAGCTACCAGCATCCAAATCAAGGAGGTTATGCCCAGCAGGAACTTTATGG
Seq A exon
GTAAGACTGGTTTTGGATCATGTGTTTCAGTCCGTTTGGATTCTAGGCACTGCATTAAAATTTAGTTTTCAGGTACACTAGGATTTGGGAGGTTTGCCTTGATAGCTTGATCTGGCAGAGGGAAAAACTCTTTGAAAATCAGGATCTGAATACTGAGTATCTTTGAAGTATTAGTGATGCTTAACTCTGGGCTTCAGATTTACCTCATTTTCACTGAAGAAAGTAAAGTCAGGACAGGAATAAGCTGGAGGAATTTGGCTGTGCAGCATGTAAGTGCTTTCTCTGCAGCAAAACTGGCAAGAACTGTCTGAATGTACAGCAGCTTCTGGCAAGAAAGTGCTAGGGCTGGTCCAGCATTTTCTGTGGATAATATTCACCTTCATTTGTCACACCTGTGATGCAGAACTTAATGAAAATGGGAGCATCCCTGTTGAATTCTTATTGTTCATTCTTATACGTGAATTTTTGCAATGGTGATAGGTGCTGCCATATTAGATTGTCACTCCACTTAAGAGGATTGCAATATTAATGCAAAGAGATGGTGCTCAAATGATGACGCTGAGAGCTCTGTGGGTTGCCAGTACCTTGAAAGTCTAGAACAGGCACTGTCTTGCAGTAGCTAGAACCAGCTTTCAAGTCATAAATATTAATTTTTTGCCTTTTCTTCTCTGGCATGTGGGTTTATCCAG
Seq C2 exon
CTGTCAAGAATGTGCAAGGGGATTATTATCTGAATGGACATTGGACAATTGACTTCAGCCGAACGCTACACATAGCTAGCACAGTTATGCACTATGATCGTGGCTCAGAAGGTGATCTGGCCCCAGAGCTCCTCCATGCCAGGGGTCCCACCACAGAGCCCTTAGTCATTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009315:ENSGALT00000015156:7
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=0.155
Domain overlap (PFAM):
C1:
PF059869=ADAM_spacer1=FE(23.3=100)
A:
NA
C2:
PF059869=ADAM_spacer1=FE(49.1=100)
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:
GGTACAATCAAATCTTCATCATCCCT
R:
CTCAATGACTAAGGGCTCTGTGG
Band lengths:
254-943
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]