HsaINT0126514 @ hg19
Intron Retention
Gene
ENSG00000104368 | PLAT
Description
plasminogen activator, tissue [Source:HGNC Symbol;Acc:9051]
Coordinates
chr8:42045424-42046589:-
Coord C1 exon
chr8:42046452-42046589
Coord A exon
chr8:42045535-42046451
Coord C2 exon
chr8:42045424-42045534
Length
917 bp
Sequences
Splice sites
5' ss Seq
AAAGTATGT
5' ss Score
6.93
3' ss Seq
TCCTTTTTTATACTTGACAGGTT
3' ss Score
8.73
Exon sequences
Seq C1 exon
TGATCTGCAGAGATGAAAAAACGCAGATGATATACCAGCAACATCAGTCATGGCTGCGCCCTGTGCTCAGAAGCAACCGGGTGGAATATTGCTGGTGCAACAGTGGCAGGGCACAGTGCCACTCAGTGCCTGTCAAAA
Seq A exon
GTATGTACTGAGGCTGGGAGGTGGTGCATGCCTGTGATCCCAGCACTTTAGGAGGCCAAGGTGGGAGGGTCGCTGGAGCCCGGGAGTTCAAGACCAATCTGGGCAAACATAGCAAGTCCCCTGTCTCTACAAAAAATAAAAAAATTAGCCAGACCTGGTATGTAGTCCCAACTACTTGGGAGGTTGAGGCAGAAGGATCACTTGAGCCCAGGAGTTGGAGGCTGCAGTAATCTACGATTGTGCCACTGCATTTCAACCTCAGTGACAGGGCAAGCCCTCACCTCTAAAACAAAACAAAACAACACAAACAAAAACAAAAACACAGAAAAGCCCAGTACAAATCGACTTCAAACTGAGACTTCGAGTTCAGGGGTCCAGTCATGAACCCTGTCTTTCATGGTCCCCGGAAAGTTCAAATCTTCAAAAGGAGCCTCCAGGCCTGTTCGGCCTTAGGCGGAGGTGAAGGTACAAGCAGAAAAGGGAGCAAGACCAAGTGACCTTGGGCAAATGCCCGCTTGCCTCAGTTTCCTCATCTATAAAGAGGTGGGAATAACAGTACACACTTCATGGTTTGCTGTGAGGATTAAATTAGCTAATTTTTGTAGACTGTACAACAGCGCCTGGCACATAGAGCACATTCTTAATATTTTAACTCACATCATCCTTGGAGCTGCTTTGAAAATACAGGGGACCCTTGAACAACACTTGTCTGACCTGCAGGGTCCACTTATGTATGGATTTTTTTCAACCAAAGGCAGGATGAAAACAGTATTTGTAGGATGCAGAACTGGTATACGCGTGTTCCACGCTGCAGGACTTGAGTGTGTGTGGATTGTGGTAGACAGGGCTCCTGGAACCATGGCCTGAGCACACAGAAGGAGGCTGTCATTAGGGGCTTCCTTTTTTATACTTGACAG
Seq C2 exon
GTTGCAGCGAGCCAAGGTGTTTCAACGGGGGCACCTGCCAGCAGGCCCTGTACTTCTCAGATTTCGTGTGCCAGTGCCCCGAAGGATTTGCTGGGAAGTGCTGTGAAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000104368-PLAT:NM_000930:4
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0003913=fn1=WD(100=80.9)
A:
NA
C2:
PF0000822=EGF=WD(100=84.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAACGCAGATGATATACCAGCA
R:
ATTTCACAGCACTTCCCAGCA
Band lengths:
230-1147
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)