GgaINT0048624 @ galGal4
Intron Retention
Gene
ENSGALG00000012526 | PRPF40A
Description
PRP40 pre-mRNA processing factor 40 homolog A [Source:HGNC Symbol;Acc:HGNC:16463]
Coordinates
chr7:35063824-35066094:-
Coord C1 exon
chr7:35065945-35066094
Coord A exon
chr7:35063905-35065944
Coord C2 exon
chr7:35063824-35063904
Length
2040 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
GAAATACTGTTTATTTGTAGATG
3' ss Score
6.84
Exon sequences
Seq C1 exon
GCTGTCTTTCAGATGGGACACCCAGGGATGCCGCATTACCCGCCCATGGGAATGCACCCTATGGGTCAGAGGCCACCCAACATGCCCCCAGTTCCACATGGCATGATGCCTCAGATGATGCCCCCAATGGGAGGACCACCAATGGGGCAG
Seq A exon
GTGAGCCACTTTTATGATCTTTTTTTTTTCTTCTTTCTTCCTGTAATGATGTCAGGTCATCTCAGCATGTGATAAGTTGCATACAGTAGCTTGCAAATGAGGTTAATAATTCAGGGTGTTCTATGCCACTGTTCCTATCCATGCAGAAAATGCTGAAACTCTCCTCATTGTAACAGGTAGTTGATGCACTTTGTTTAGAGCTTTAGTTGTAAACTGATAAAAGCTTATTGCTAGATTTGTTTTTTAGATTTTGAAGAAATAAAAATGTCATCTTAATACATACTGCAATCAGAAAGTTTTGGTTCTTCTCAGATGCTGAAATAAGAGAGCTTCTTGTTTCTCTCATTCTTGGCTGTAATGTCCATGCGGATGAAGACTGTAGGGAGATACAGGGAAGAATAAATCAAGACTTGAGTTGTTGCAGAATTCCCTCTTGAATCCTAGAGAGTGAATTGTAGTTGTGTAATATACTGTTGTTGCTAACATATTATGCAGTTTGAAGAATAAGCTTGGCCATTCAGATCAACACCAGTGAAACTAAACTGACAGGTGGAGTAGCCAGAATCAGAGTTGTGCTTTTTGCACATTGAAAACTTTATTCAAAATAATGAAAGACCCTTTGTGCTTTCTGATTAGTTTTTGAATTTCTGAAGGAAGCAGTTCTCTTTCTGTTTGTTAGAAATGCTTCAGTAGCAGTGCTTGTCATAGTAACTTGCCTTAGGAGAAACCAAGGGTTATCAACTAGATGATAGAGAAGATTAGGCTCGTGAGAGGGTGACATGAGTGATTAATGCTTTGAGTAGAGCCCTCAGGGTCATGCGAGCAACTCCTTGCTTGTTTTCCTTTGCAGTACCTTGGATAGAGCCTGTGGATGAGGCTTTTTGTTTTGCTCATACATAAAAGCCTGAGAGGAATCTTCAGCATGGTTTTGCAGCCTGTTAGAGCAGCAAAAATAATGCAGTAGTAGATTAGGAGAGCTTGACCATTGGTATGGCAGTTGGTAGTGTGAACTTCTGTGTTTATTTATTAAACTCAAACAGCAATTCTGTTTTGTTCCTCTGCTTAAGAGGTACGTTTGTTTTAAATTCTGTTCCACTATCTGTACTCATTCTATGAGTATTTCAGTCTGCAGTATTTTAGTGAGCAGTAGAGATGGCGAACTCAAGAATTTTTGGTAGCTGTAGAGTAAAAAGCCCTCGATAAATGCTGTGGCACGGAGGGAGCTCAGTTATCCTATGGCTCTGAGGATGGGACAGGACAGTGACACACTCACACCAAAAGTGTGAAAGTGTCAGCTTATGTTGACTTGTTTCTGTGGATGATAACCTCTTTCTTCCAGCATCTATCAGAGGTTTATTTGCCTGGAAGAAATTCATTCTTCCGGTGCCCCTGTCAAGTGTTTCTTTCTACTTCTTGCAGAGGTAAGAGGAAAGGGAGACAAATGGAAAGCAGCAAAAACTTGTGAGCAGAACTAATCTGAGTTTACCTTTCCTGTGTTTCATTAATTCCATGTGGCCTTGGAGTTTTGAGAACTTCACAAACCTTTATTCTTCCTGTTTTAACTTAGGATTTCAGTAACAGCTTATCTAAAGGATTACATGTTGTATTCTTTACTGTTGCTCTTCTTTAGTTGTAGTAATTGTCTTTATTATTATTTCATACATGACTTTGGAATGTGGGAGATGTGTTATTCCCAATGTAAATTTTGTAGGAATTGGAGGGGAATCAGAGTTCTGCAAGCTTAAGTTGTGTTGCCAAAGTCTTTATAGGCTTCTCTGCATTAAGATCTAGTATCATGTAATTATTTAAAAACAAACCAAAAAAAGAACTCTCATCTGAAATATCACAAAATCACAGCATGGTCTGGGTTGAAAAGGCCCACATCCCGTTCCAACCCCCTGCTATGTGCAGGGTTGCCAACCAGCAGCCCAGGTTGCCCAGAGCCACATCCAGCCTGGCCTTGAATGCCTGCAGGGATGGGGCATCCACAGCCTCCTTGGGCAGTATCACAATGTATATTGAAATACTGTTTATTTGTAG
Seq C2 exon
ATGCCCGGAATGATGCAGTCAGTCATGCCTGGAATGATGATGTCTCATATGTCCCAAGCTGCTATGCAGCCTACAGTTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012526:ENSGALT00000020462:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.952 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]