GgaINT0135992 @ galGal4
Intron Retention
Gene
ENSGALG00000003709 | PLAT
Description
plasminogen activator, tissue [Source:HGNC Symbol;Acc:HGNC:9051]
Coordinates
chr22:2712975-2713487:-
Coord C1 exon
chr22:2713396-2713487
Coord A exon
chr22:2713150-2713395
Coord C2 exon
chr22:2712975-2713149
Length
246 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAT
5' ss Score
7.87
3' ss Seq
ATGCTGTTTTATTATTTAAGTTG
3' ss Score
5.24
Exon sequences
Seq C1 exon
AAACCCAGATGAGGACTCCAGACCTTGGTGCTATGTCTACAAAGGGGGGAAGTACACCTGGGAATACTGCAGTGTGCCCCCCTGTTCAAAAG
Seq A exon
GTACATGCAGGAGGACAGAGAATGGGCTTTAGATATATAGTGAGTCGTAGCAACTCTCAGAGTTCTCTCTGGCCTTATGAAAATTAGCAGTTAAGATATTCTCATGTTAAATCATGTTTAAGGTTTTAATATTTATTACAGAGCCTGAGATAAGTATAGCTAATACGTAGGAGCCTTGACAGAAATCACAATTAGAACAGCTGATGGCTCACATTCACCATTTCACATGCTGTTTTATTATTTAAG
Seq C2 exon
TTGGAAACATCAATTGCAAAACTGGAAGAGGCACAGATTACCGAGGTAGTCACAGTGTTACCATTTCTGGAGCTACCTGTTTGAGGTGGAATTCTCAAATCATTGTCAGCAAGTTATATACTGCTTGGAGAAGAGATGCTTACCAGCTAGGCCTTGGCAGTCACAATTTCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003709:ENSGALT00000005886:7
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:
PF0005113=Kringle=PD(34.1=87.5)
A:
NA
C2:
PF0005113=Kringle=PU(64.6=89.8)
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:
ACCCAGATGAGGACTCCAGAC
R:
GAAATTGTGACTGCCAAGGCC
Band lengths:
260-506
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]