GgaINT0048642 @ galGal3
Intron Retention
Gene
ENSGALG00000012526 | PRPF40A
Description
NA
Coordinates
chr7:37182383-37183148:-
Coord C1 exon
chr7:37183011-37183148
Coord A exon
chr7:37182479-37183010
Coord C2 exon
chr7:37182383-37182478
Length
532 bp
Sequences
Splice sites
5' ss Seq
GATGTATGT
5' ss Score
6.31
3' ss Seq
CATTGCTGTTTCTCTGGCAGATC
3' ss Score
11.07
Exon sequences
Seq C1 exon
CTGCTGGAAAAGGCAGAAGCCCGTGAAAGAGAAAGGGAAAAAGAAGAAGCTCGCAAAATGAAGCGGAAAGAGTCTGCCTTCAAGAGTATGCTGAAACAAGCTACTCCTCCCATCGAGCTGGATGCTGTCTGGGAAGAT
Seq A exon
GTATGTATTGCTGCTTCATTATGGAAGTCATTCCATATATATTCAGCAGGTTGATACATGCTAATAACTAAGCCTGCATTCTCTGTGGTCGTGGTTTCTGCTTATACAGACCCGTAAGAATGAGTCACCTCTTCAGCAGACATCAGAATTGGAGTTGAAAATTTTAATTCTATCAATACCTCCATTTGGTTTATTTTAAGCGAATGGTTTAAGAGGAGATTAAAGGACTCTGCTCAGTTGAAAGTCTAACTTTGTTCTGGTAGGATTAAAGCCTTTTCTGTCACAGCGTACTTCACGGTACGCAGTGTGCTTTTACTGAGCTTGTGAGGCATATGCAGAAAAAAAACAATTCTGCATGCACGTGTATCCATTTGTGCAGTTGTAATAAAGACCCTGCTGGTTATAGAGCTGACAAGAAACAATCCGAGCCTGTAACAGCACCGTGGCTTTCCCAACTGGTGGAGTAATGTCATCTGTAAGCTTCAGAATGTCTGCATTTCGTGTCAGTATTTCATTGCTGTTTCTCTGGCAG
Seq C2 exon
ATCAGAGATAGATTTGTGAAGGAACCAGCATTTGAAGACATCACTCTGGAGTCTGAAAGGAAAAGAATATTTAAAGATTTCATGCATGTACTTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012526:ENSGALT00000037747:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.543 A=NA C2=0.188
Domain overlap (PFAM):
C1:
PF0184614=FF=PU(46.2=52.2)
A:
NA
C2:
PF0184614=FF=PD(50.0=81.2)
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:
TGCTGGAAAAGGCAGAAGC
R:
TATTCTTTTCCTTTCAGACTCCAGA
Band lengths:
206-738
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]