HsaINT0127560 @ hg19
Intron Retention
Gene
ENSG00000122194 | PLG
Description
plasminogen [Source:HGNC Symbol;Acc:9071]
Coordinates
chr6:161173147-161175085:+
Coord C1 exon
chr6:161173147-161173292
Coord A exon
chr6:161173293-161173931
Coord C2 exon
chr6:161173932-161175085
Length
639 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TTTTCTCTCCCTCTGTATAGGGT
3' ss Score
11.25
Exon sequences
Seq C1 exon
GTACTTTTGGAGCTGGCCTTCTCAAGGAAGCCCAGCTCCCTGTGATTGAGAATAAAGTGTGCAATCGCTATGAGTTTCTGAATGGAAGAGTCCAATCCACCGAACTCTGTGCTGGGCATTTGGCCGGAGGCACTGACAGTTGCCAG
Seq A exon
GTAAGCAAAGATCAAGAGACCAAAGTTAGTCTTGTGCTCTCTTGTCTCAGTCTCAGCCCCTCAGACTTCATTCCCCAGGTGGCAAATTCAAGGATTTTCAACCGAAGACCCCAGTCTAAGTGTTGTTTAGAAACTTCCTAGATCTGTCCCTGAATGCGTATTCAGATCATCTAAGGGGATGTCTTGGGGCTTGAGTTCCAAATCAGTAGCAAGCGAGTTTTAAGTGCCATAACTACCTCAGGCCACTCACCCTCCTGGGGTGTGCTGGTGGCCAGGGACTAAAGTGGTGACTTTTCCGGTAGGGAAGGAGGTAGAGGATACAGGACAGAGACCAACTGCACACACTTTACACTGATGCCCAGGCTAGCCCAGTCTAAAGGAAACACCAACATAGGAAGGGATGTGTGCAGGATTCACAAAAGATCTTTTCTACCCCCCGGAAAAACTAAGTGGTGTGGTTTCGCTAAACAGATTTTGCTAAGTACTTAAGCACTGCAGATGCTTGAGTAATATGCTCATAAGTTCCTTTCTGATTTCAATTACTGGGAAAATGTATATATGGATAGTAGAAGGATGGCATCCCATAATAAAAGGCAGGCAGCCTAACCCTCACATGCATTTTTCTCTCCCTCTGTATAG
Seq C2 exon
GGTGACAGTGGAGGTCCTCTGGTTTGCTTCGAGAAGGACAAATACATTTTACAAGGAGTCACTTCTTGGGGTCTTGGCTGTGCACGCCCCAATAAGCCTGGTGTCTATGTTCGTGTTTCAAGGTTTGTTACTTGGATTGAGGGAGTGATGAGAAATAATTAATTGGACGGGAGACAGAGTGACGCACTGACTCACCTAGAGGCTGGAACGTGGGTAGGGATTTAGCATGCTGGAAATAACTGGCAGTAATCAAACGAAGACACTGTCCCCAGCTACCAGCTACGCCAAACCTCGGCATTTTTTGTGTTATTTTCTGACTGCTGGATTCTGTAGTAAGGTGACATAGCTATGACATTTGTTAAAAATAAACTCTGTACTTAACTTTGATTTGAGTAAATTTTGGTTTTGGTCTTCAACATTTTCATGCTCTTTGTTCACCCCACCAATTTTTAAATGGGCAGATGGGGGGATTTAGCTGCTTTTGATAAGGAACAGCTGCACAAAGGACTGAGCAGGCTGCAAGGTCACAGAGGGGAGAGCCAAGAAGTTGTCCACGCATTTACCTCATCAGCTAACGAGGGCTTGACATGCATTTTTACTGTCTTTATTCCTGACACTGAGATGAATGTTTTCAAAGCTGCAACATGTATGGGGAGTCATGCAAACCGATTCTGTTATTGGGAATGAAATCTGTCACCGACTGCTTGACTTGAGCCCAGGGGACACGGAGCAGAGAGCTGTATATGATGGAGTGAACCGGTCCATGGATGTGTAACACAAGACCAACTGAGAGTCTGAATGTTATTCTGGGGCACACGTGAGTCTAGGATTGGTGCCAAGAGCATGTAAATGAACAACAAGCAAATATTGAAGGTGGACCACTTATTTCCCATTGCTAATTGCCTGCCCGGTTTTGAAACAGTCTGCAGTACACACGGTCACAGGAGAATGACCTGTGGGAGAGATACATGTTTAGAAGGAAGAGAAAGGACAAAGGCACACGTTTTACCATTTAAAATATTGTTACCAAACAAAAATATCCATTCAAAATACAATTTAACAATGCAACAGTCATCTTACAGCAGAGAAATGCAGAGAAAAGCAAAACTGCAAGTGACTGTGAATAAAGGGTGAATGTAGTCTCAAATCCTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000122194-PLG:NM_000301:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(21.5=100)
A:
NA
C2:
PF0008921=Trypsin=PD(20.2=83.3)
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:
CTTCTCAAGGAAGCCCAGCTC
R:
TACCCACGTTCCAGCCTCTAG
Band lengths:
345-984
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)