HsaINT0127561 @ hg19
Intron Retention
Gene
ENSG00000122194 | PLG
Description
plasminogen [Source:HGNC Symbol;Acc:9071]
Coordinates
chr6:161134018-161135946:+
Coord C1 exon
chr6:161134018-161134157
Coord A exon
chr6:161134158-161135825
Coord C2 exon
chr6:161135826-161135946
Length
1668 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGG
5' ss Score
6.23
3' ss Seq
TTCCTTCCCACTCTGTCCAGAGG
3' ss Score
7.18
Exon sequences
Seq C1 exon
ATTCTCACCTGCTACACACCCCTCAGAGGGACTGGAGGAGAACTACTGCAGGAATCCAGACAACGATCCGCAGGGGCCCTGGTGCTATACTACTGATCCAGAAAAGAGATATGACTACTGCGACATTCTTGAGTGTGAAG
Seq A exon
GTCAGGAGTGGTTCTAGAAAATGTTTTCATTTCTGCCCTTCACCTGTAAAATAATTTGTTGTAAAGCCCCTTCCCACAGGGATGTTATTAATAATTGAGTAACGTATTCACCTCTCGGAAAGAAGCAAAACCCCAGAATTAACCTGAATTTTTTTTTTTTCTGAGACAGAGTTTTGCTCTCGTTGCCCAGGCTAGAGTGCAACCGTGCAATCTCGGCTCACCACAACCTCCGCCTCCGGGTTCAAGAGATTCTGCTACCTCAGCCTCCCAAGTAGCTGGGATTACAGGCATGTGCCACCATGCCTGGCTAATTTTATATTTTTAGTAGAGACAGGGTTTCTCCACGTAGGTCAGGCTGGTCTTGAACTCTCGACCTCAGGTGATCCGCCTGCCTCAGCCTCTCAAAGTGCTGGGATTACAGGCATGAGCCACCATGCCCAGCAGACCTGAATTATTTTTATTAAAATGTTACATCAACATGTACAAATATAAAACTACATCTAAACTCTAAGTACAAACTTCTTATGCTTACAACTCTTACACAGTGTTAACCCCAAGACAGGTTTGCAATTAAATAGTTAAAATAAAACAACAAAATCAATAAAAATCAAATAAACAATATATATTTAATGTGGTAGACTTTGCTGTTTTGCTGAAGCTAAGCAAGGAACCAGTTTTTAAATCAGCAATCCATTATTTGAATGGACTGAGCAATTTAATAGTGCACCTCAAAGGTCAATGCTAAAAAATTTTAAAAAAATCCTACTGAAAAAACTGTCATCGTTTCACATTTCTGGCTACATTAGTGCAAAAGGGAATAAATAAAGGTGAGATTTGTGTGACAGTGTGGATATGGTACTGTGTGACAACTCAGTTCTCCCATCACTTCCACCTGTTCGAATCACGGGGATCCTTTATTTGTACACCATGTTATAGGTATTTGCCCTTAAGCACCACCAATGCATCACTGTTATATTAAGTCTGCCCGTTTTCCTTAGTACTCCATAAAATTTAAGTCACATATTACTCTGCCTCACCATGTTACTTCAATAATTCTGAATCAAAGTTTAAGTTTGTGAATAATTTTGCAAAAAAGAGCCAATCATGCTTCTCAACAACATAAAAAGAGAAGCGCTGTCACTTCAGGTGAATATTGTTCTCCCTGAGGCCATGAGCATAAACAAAAACTCCAGACTAAAACCCTGAGACGGTGCCAGGTCATTCAGCAGTCAGCGGAATGATCAGAATAATTTCATACAAAGTTTTAAAGATCATTATTGAAATGAAGATGCCAAATATTGAAAACTCCTAATGGAGAACGTAGACTCCTGGGAATATATGCACCCTTGGCTCCCCACTGGCCTGTGCATCCCGGTCTAAGGACATGGCATCATGGAAATTCTGAACTTGGTCATGACTACAATAGTTGAGGGAGTATTGACTAAAATATGTGAATGTTACGGTTTAAAAGGAAAATGACATTTGGATTATGCTAGAAAATCCTGAGTCCTTATTGCCAATTTTATTGCCAAGTGCCTGTTGTGAATTACATCGGAATGAGAGGCAAGTCGCACTTAAGTGAGTAGGATTCTGGTTTTTACTCTCTATTTTGCTTCATCCATTTCAGTTTTCTTCTTCCTCTCTGTCCTTCCTTCCCACTCTGTCCAG
Seq C2 exon
AGGAATGTATGCATTGCAGTGGAGAAAACTATGACGGCAAAATTTCCAAGACCATGTCTGGACTGGAATGCCAGGCCTGGGACTCTCAGAGCCCACACGCTCATGGATACATTCCTTCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000122194-PLG:NM_000301:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.460 A=NA C2=0.122
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PD(57.0=93.8)
A:
NA
C2:
PF0005113=Kringle=PU(48.7=92.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTCTCACCTGCTACACACCC
R:
GAATGTATCCATGAGCGTGTGG
Band lengths:
254-1922
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)