GgaINT0053591 @ galGal3
Intron Retention
Gene
ENSGALG00000009315 | PAPLN
Description
NA
Coordinates
chr5:28499074-28499675:-
Coord C1 exon
chr5:28499545-28499675
Coord A exon
chr5:28499198-28499544
Coord C2 exon
chr5:28499074-28499197
Length
347 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
ATGCTCCTGTGCCCTGACAGGCT
3' ss Score
8.75
Exon sequences
Seq C1 exon
CACCCAATAAGTGTGAGTTAAACTGTATTCCAAAGGGAGAAAACTTCTACTACAGACACAAGGAAACTGTGATAGATGGGACTACTTGTGAACCTGGCAAGCGGGATATCTGTGTAGAGGGAGTTTGTCAA
Seq A exon
GTGAGTCATGGTGTTGCTTCCTTCCTCTGCCATTGCGTCTATTAGTCTTGCGGGTTCTTCCCTTTGTTCTACTTGGCCATTTGTAATAGTATCTAAAAAGTGGATTCACTCAGTTTCTGAGATGCTGAGGAGAATATCAACAGCATTTATCTCCCTGTCTCTGGAAGTGAAGGGGAAGAGGTCAGCTTTGTCCTTCTCTTGACAACAACTTTCCTACCTTCTGATTTCCCACACCCCCTAGATTCAATTCAGGTTTTCTCATAAGAACAGTCCATCATTTAGCCATTTTGTCTTTCTTTCCCTTGTCATTATGGTTTATTCATATTGATGCTCCTGTGCCCTGACAG
Seq C2 exon
GCTGTTGGCTGTGATAACATACTAGAATCTACCAAGAAGGAGGACAAGTGCCTACAGTGCGGAGGAGATAACAGCACCTGCTATGATGTGAAGGGCACTTTTGATGTACCCAACCTCCCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009315:ENSGALT00000015156:5
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:
PF059869=ADAM_spacer1=PU(12.1=33.3)
Main Inclusion Isoform:
NA
Other Inclusion 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:
CACCCAATAAGTGTGAGTTAAACTGT
R:
TTTGGGGAGGTTGGGTACATCA
Band lengths:
254-601
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]