GgaINT0048634 @ galGal4
Intron Retention
Gene
ENSGALG00000012526 | PRPF40A
Description
PRP40 pre-mRNA processing factor 40 homolog A [Source:HGNC Symbol;Acc:HGNC:16463]
Coordinates
chr7:35056582-35057285:-
Coord C1 exon
chr7:35057221-35057285
Coord A exon
chr7:35056747-35057220
Coord C2 exon
chr7:35056582-35056746
Length
474 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
GTTTTCTTTTTGATACGAAGTGC
3' ss Score
2.58
Exon sequences
Seq C1 exon
CGAGTACCATCCAATGCTTCTTGGGAGCAAGCCATGAAAATGATCATTAATGATCCGAGATACAG
Seq A exon
GTACTGCTTGATTCTTTACTCATAATGTATTTCCATAAATGAGGGACTGGACTGGACTGGTGTCACTTATGTGAAGTGCAAGTCCTAGCATTCATTCTCCATTTGGGAAGGATGTGGCAGTTGTCAGTGGTATTCTGTACAATTGATACGGTTTGCTTAGGAATGAAGACACACCTTTGATTAGGATGGAGATAAATACTTTCTAAGTTATTCTGAAATGGGTGCCTGCCATAAACATTCACAGAGAAGTGGCTCATATCCGTTGTAAGAGTAGCATTGCAGGATGAAATGGGTGAATAGGGCCTGATAGTGGCCCTGAGGGAGGGGCAGGACTGTGGCTGGTTGTTTAGATCATATTTAAGTTTGTCTCAGAGATTTGGGTTATTGAAATCTGTTTCATGCTTTGGGTTTTTAGTTTTGATGTTTAAATGTAATTACCTTTCCTGTAATTCATGTTTTCTTTTTGATACGAAG
Seq C2 exon
TGCTTTGGCAAAGTTGAGTGAAAAAAAGCAAGCCTTTAATGCTTACAAAGTTCAAACAGAAAAAGAAGAGAAAGAAGAAGCAAGATCAAAATACAAAGAAGCTAAAGAGTCCTTCCAGCGTTTTCTGGAGAACCACGAGAAGATGACATCCACAACACGATACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012526:ENSGALT00000020462:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.409 A=NA C2=0.375
Domain overlap (PFAM):
C1:
PF0184614=FF=FE(42.0=100)
A:
NA
C2:
PF0184614=FF=PD(30.0=26.8),PF0184614=FF=PU(44.0=39.3)
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:
CGAGTACCATCCAATGCTTCT
R:
TTGTATCGTGTTGTGGATGTCA
Band lengths:
230-704
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]