GgaINT0053597 @ galGal4
Intron Retention
Gene
ENSGALG00000009315 | PAPLN
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:HGNC Symbol;Acc:HGNC:19262]
Coordinates
chr5:25604291-25606366:-
Coord C1 exon
chr5:25606159-25606366
Coord A exon
chr5:25604468-25606158
Coord C2 exon
chr5:25604291-25604467
Length
1691 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TGTTGTGCCCTGTTCCACAGTGC
3' ss Score
9.01
Exon sequences
Seq C1 exon
GTGGAAAACAGGGGAGTGGGGACCCTGCTCAGCTACCTGTGGTGGAGGCACCCAGACTCGCTCTGTTTACTGTGTAGCATTTGATGGTCAGAACTCCCAAGGTGTTGTGGACAACGCTGAGTGTATGGCCTTTGCACAGCAGCCTCACAGCAGTCAGCCCTGCAACAGGAGACAGTGTGCAACCTGGAGCACAGGGCCCTGGTCAGAG
Seq A exon
GTGAGTTTGTGAGAAGCAACTGCCACATGGCATCCACTGGAGGAGGGTCTGCCAAAGCTTGAGGGTGAAAAACCAGGCACCTTCTCTGGGACTGTATAAGGTGTGTGTCCATGGCAAGGTGCAGAAGTATAACAATATCTGTCCCTGCAGTCCTCCAAAGAAGTTCTCCAAATAGCATCTATGCCTTTTGATAAATTTATTCCTGTTCCTTTTACCACATGCTTTCTCCCCTGTATGTTCATCAGATCTACCAGACCTTGCCACTGTCAGTTTCTGAGTCAGGCCTGGTGGAGGTTGGGAGGGCAGGCTAAGAGCTGCTGTCCTGCAGCTGATCTCGTGCAGTAACATTCTCCTCTGTAAAAACAGGAGCTCGTGGCTCCCGCTTATGCTGCTTATTTCCATGCATATTGCTGCCCCAGCATTACTAGCCCCTGAATGGCAGTACTAAATCATAACAATCAATAAGCAAGATGCTATTGAACTGCTGGTGAGCTGCTGTTTACCATAGGCTGTGTATCAGTGCAAGGCTTCTCTGGACAGCTGCAGTGTGCATTTATCTTCCACACTATGTGTACCCAGCACTGTCAGCCAGGCATTTAGAAGGCATCTTATGTTCAAAAGTCATAGAAAGTAAAGGTAGTAAATATAATTGAATTGCATATACTCAATCCCTAAAGCACAAGTGAATTTCTGTCTTCTGAAAGAAGGTGTGCTGCATGCTTGCAACATTTGATTTACAGTCTTGTGGTATTTCTTGGAATGATGCGGCAGCATCGTGAAATGCAACTTTGAGGCATGATAAGCAGGACTGTAAGGCCTGCTTTGTTATTGTTTTTGTACTCTCATGAGATGTGGGGTGTGAATACTGAGATGAATTCAGGGTTGTGGAATGTGAGCACTGTTTAGGGAAGGCACAAAGCACTAAGTGACGTGTTCTTGCAAACTGATTCGTAAGTGATTCATTCTGGGTTTACAAAAAAAGACTGTGCTTCAGCTATGTGTTATTGGAGATAAAAGGTCACTCTAGTAAATAGGTAGCAGAAACTCTGCTGGCTCAAGGTAGTTCAGGCAGCTCTCAGGTTATCTCTTATGTAGTAGACTTGGGCAATTCTAGGAGAACTGAGCTGAATTCCAGACAAAACCACTGTGAATTTAACAGAGGATTGCAAAAGGCCATTTACATGCATAGAAAGACGATGTCTCGCAGCTCGACACCATAAAATGGAGCATGAGGTCTTCAGGAAAAAGACATGAGAAATGCAAGAACCTTGTCTTTTTATCTTCCCCCCAATTCTTTACCTTGAGCTGGTTTTAATCAGGAGTAACAGACAGTAGTTTGCAGGTATCTCCTGCTGTTTACAAACATCCTGTTCTGAATGTATTCTGTTGTACCGGTATTTTTTTCCAAAATCATTCATTCTCCTTGTCTTTTTTGATAGAGAGCAAGAGAAGTTATGTAACTAAGCCAAAATCATCCAGTGAAATCCCAGATCCTATCCACCATGCCATATTGTCTCTTCTACAGCACAACAACCACTCCGCTCATTCCCGTCCAAGAAGATGGTTTTAATGGTGGTTGCTTGTTTGAGACATTCTTAATATGGTACTCTGCCCTGATGTTGGGGACCACAGCCTGGAAATGCAAGTGTAAAGTAGCTACTTCCTTTTCACTGTTGTGCCCTGTTCCACAG
Seq C2 exon
TGCTCAGCCAGCTGTGGGGAAGGCGTCCAGACCCGGACTGTCACCTGCAGAACGCAGCATGGCTCTCAGGCTCAGGACTTTGCTTGCTTAATGGAGCCAAAGCCACCAGCCACGCAGCCCTGCCTTAAGGAGAACTGCATCCAAGAAGTCGGTTGGCACGTTGGAGACTGGGGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009315:ENSGALT00000015156:11
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:
PF0009014=TSP_1=WD(100=84.3),PF0009014=TSP_1=PU(13.0=10.0)
A:
NA
C2:
PF0009014=TSP_1=PD(83.3=76.3),PF0009014=TSP_1=PU(10.9=10.2)
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:
GACCCTGCTCAGCTACCTGT
R:
GTGCCAACCGACTTCTTGGAT
Band lengths:
347-2038
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]