GgaINT1022686 @ galGal4
Intron Retention
Gene
ENSGALG00000012526 | PRPF40A
Description
PRP40 pre-mRNA processing factor 40 homolog A [Source:HGNC Symbol;Acc:HGNC:16463]
Coordinates
chr7:35049313-35051914:-
Coord C1 exon
chr7:35051853-35051914
Coord A exon
chr7:35049406-35051852
Coord C2 exon
chr7:35049313-35049405
Length
2447 bp
Sequences
Splice sites
5' ss Seq
TCCGTAAGT
5' ss Score
10.27
3' ss Seq
CACCCCTTCTCTCCCTGCAGGGC
3' ss Score
13.39
Exon sequences
Seq C1 exon
AGAGAAGTTACAAGAAGTCAAAAAAACACAAGAAAAAGAGCAAGAAAAGAAGACATAAGTCC
Seq A exon
GTAAGTACAGCTCACTTCTTTCCAGTTGGCTTAAGGCTCAGCTTGACACCTCAGGGCCAGTCACAGTAATCCTGTTTGTTAAATACTGGCAGTTACCAGCTGGCTTTAGAGCAAGCACTTCTCGATCAGATGTTGTTATGTATACCTTAATGTTAAGCCATTTAGAACAGTAACATGGGGGGGAGGGAGGCTTAAACTGCAACTATGGAAGCAAATATGAAGGACTGCAGTATCCTGCTATTGGCTGCTTGTCATCGCAGCACGTCTTGGAGTTGACTTCTATTGTGGAGTGCTGGATAGAATCCCAGTCATCTTTTCCTTTCACCTCATGCTGAGCATCAGTCCTTTCATCTGCCTGAGTAGCAGGGTTGAGTTAGCAGCTCTGACATCAAATGAGCCAGAGCATCAATAGAACCTAAAGAGAAAGAGAGCTTTCATCCTCTGTGTACGTCACTTGAGGCCAAAGTGTATTTTTGGTGTCAGGTAAAGGAGGAAGTTGGTGTCTCTGAACTCAGGTTCCTGTAAAGCTTTTCAAAACAGCAATGTTGTGTTGTTTCTGTAAATCCTGAGCAGTTGGCTGTGCCCTTCAGTGGGCAGCATTCACAAAGAGGAGATGGGTACCAGTGCTAGGCATTGAGTAACATATCGGTGCTGAAGGGCTGCGACACACACAGGGTCACATAAGCTTAGCTGGGATGAAACGCAGGATGAAAACAGGCACAGCACCTGAGCCCTCAGTGCAGCAGAATTCCAGGAGCACGAGAGCATTCAGATGTGGCAAAGCAGCCACAATAACAGATGAACAATTAGCAGACTTCACCCTCCGCAAAGCTGTTATGGAATGAGTGGCATCAGTGTACAGAAGGGATTCACTGCGTGCATCCAGCATGCCCTGTGTTTGCATGCACTAAAAATGGTAAACTTTTTTAGGACTCTCTCCTTTTGAAATAACTTCAGTAATGTTTCTGCATTACTTACTTCTGCCCTGGTTACTAGGACGTGTTAAACTAGCAGCCACTTCTTTCTGATGTGGCCTATATTAAAATGAAATCAGACATTTCTGAGGTGTATTTTATAAACCGTACTACCTAACACATTGAATAATAATATGTAATATTTTCCCTTTATTACAAAGGATTCACCAGAATCTGATATTGAACGAGAGAAAGACAAAAAAGAAAGAGAGAGAGAAAGTGAAAAGGATAGAGCTAGACAAAGATCTGAATCAAAACATAAATCTCCGACTAAAAAACGACCTGGAAAAGATTCTGTAAGCTTTCTTATTTCCTTTTTATGTGATGCCTTCGGGCTTTATATATCAGTGGGATGCCATAGTATGCAAGCTGTATAGCTTCGTAAAGAGTTTACTTCAAGTAAGGTGTTAAAGCTTTGTTTATGTTCCAATTCCATATCTTAAAAAAAAAGAACCAGATGTTCAAGCAGAGCTGAATCATGCAGATCCTATGCCCTCACCTACTATTTGTTACTAATGGATTTATTATTTGGCCTAATACTACTGTTTGCTGGTTGAGGTAAGGTGTGAATGAGGCTGTCTGTTTTATAGATGGTACTGAAGCATAGCCCATAGTGTGGCAGAGTACTGTTTATGATCAAACTGCTTTTCTTTTTTCCATCCAATTTGCCAGATTGATCTCAAAGGAGATGAGCAGGACAGCTGGTTGAACTCTGAGGTGATTGTGCAGCTCTTCCATTCTGTAATTTGAGTACTCTCCTCACTGCTGTAGTAGTGCTGGGCAGCTGCTAGTCTGATAGGGAAGAAAATCTAAATTCTTGCACTTTTTGAGCTGGAAAGTCGCACAGAAGTGTAGCTGTGCCCATGGTCTCACTCTTTGCCGTGATGGTTCTGTGTACTGTTTGCTTTGGGAGGGTTAGAGCAGTGTTTCAAAGATGTGTTTGAATGGGAAAAAAAGAGTGGAACAGTATTGTCTTTGGGCTTCCTGAGGGGCGGTGCTCTGCCTCACTCAGCTCAGCTGCACTGTGCTGATGGTGGCGTTCTTCCCTGTACGATTCATCTTCGGGAGGTGGGAGGCAGCCAGCTGCTTTTTGTTGTGCCTTCTGAAAGTAATCTGCCTTGGGCAGCCCAGTCTGTGCTGAATGCAGACAGCTGAGCTCCTGCTCTCTGCAGATGTGCTTGTGAACACGGGCACAGGAGGAGCTCAGCCCTTCCCCATACAGTGCCTTGCTCTGAGCGCTGCCCTGTGTGCTCTGTGAGGTGACATCAGAAACACCATGCTTGAATGTATTGCATTAAAAACAGCTGTAGAAAAATCCTGCTGGAAAATGTAGTACTCATCTGTGCCTTCCTGCAGGCAGCACTGCAGAGAGGCGTGCACTGCACAGGGCAGGGTGTGGGGGCACAAGGCAGGGCTGCAGCCGGGAGCCCGGCAGTCTGGGTGAGGCTCTCACCACCCCTTCTCTCCCTGCAG
Seq C2 exon
GGCAACTGGGACACCTCGGGCAGCGAGCTGAGCGAAGGGGAGCTGGAAAAGCAGAGGCGGACTCTTTTGGAACAACTGGATGAAGATCAATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012526:ENSGALT00000020462:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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]