GgaINT0048647 @ galGal3
Intron Retention
Gene
ENSGALG00000012526 | PRPF40A
Description
NA
Coordinates
chr7:37178101-37180071:-
Coord C1 exon
chr7:37179937-37180071
Coord A exon
chr7:37178760-37179936
Coord C2 exon
chr7:37178101-37178759
Length
1177 bp
Sequences
Splice sites
5' ss Seq
TCTGTAAGC
5' ss Score
4.33
3' ss Seq
CACCCCTTCTCTCCCTGCAGGGC
3' ss Score
13.39
Exon sequences
Seq C1 exon
GATTCACCAGAATCTGATATTGAACGAGAGAAAGACAAAAAAGAAAGAGAGAGAGAAAGTGAAAAGGATAGAGCTAGACAAAGATCTGAATCAAAACATAAATCTCCGACTAAAAAACGACCTGGAAAAGATTCT
Seq A exon
GTAAGCTTTCTTATTTCCTTTTTATGTGATGCCTTCGGGCTTTATATATCAGTGGGATGCCATAGTATGCAAGCTGTATAGCTTCGTAAAGAGTTTACTTCAAGTAAGGTGTTAAAGCTTTGTTTATGTTCCAATTCCATATCTTAAAAAAAAAGAACCAGATGTTCAAGCAGAGCTGAATCATGCAGATCCTATGCCCTCACCTACTATTTGTTACTAATGGATTTATTATTTGGCCTAATACTACTGTTTGCTGGTTGAGGTAAGGTGTGAATGAGGCTGTCTGTTTTATAGATGGTACTGAAGCATAGCCCATAGTGTGGCAGAGTACTGTTTATGATCAAACTGCTTTTCTTTTTTCCATCCAATTTGCCAGATTGATCTCAAAGGAGATGAGCAGGACAGCTGGTTGAACTCTGAGGTGATTGTGCAGCTCTTCCATTCTGTAATTTGAGTACTCTCCTCACTGCTGTAGTAGTGCTGGGCAGCTGCTAGTCTGATAGGGAAGAAAATCTAAATTCTTGCACTTTTTGAGCTGGAAAGTCGCACAGAAGTGTAGCTGTGCCCATGGTCTCACTCTTTGCCGTGATGGTTCTGTGTACTGTTTGCTTTGGGAGGGTTAGAGCAGTGTTTCAAAGATGTGTTTGAATGGGAAAAAAAGAGTGGAACAGTATTGTCTTTGGGCTTCCTGAGGGGCGGTGCTCTGCCTCACTCAGCTCAGCTGCACTGTGCTGATGGTGGCGTTCTTCCCTGTACGATTCATCTTCGGGAGGTGGGAGGCAGCCAGCTGCTTTTTGTTGTGCCTTCTGAAAGTAATCTGCCTTGGGCAGCCCAGTCTGTGCTGAATGCAGACAGCTGAGCTCCTGCTCTCTGCAGATGTGCTTGTGAACACGGGCACAGGAGGAGCTCAGCCCTTCCCCATACAGTGCCTTGCTCTGAGCGCTGCCCTGTGTGCTCTGTGAGGTGACATCAGAAACACCATGCTTGAATGTATTGCATTAAAAACAGCTGTAGAAAAATCCTGCTGGAAAATGTAGTACTCATCTGTGCCTTCCTGCAGGCAGCACTGCAGAGAGGCGTGCACTGCACAGGGCAGGGTGTGGGGGCACAAGGCAGGGCTGCAGCCGGGAGCCCGGCAGTCTGGGTGAGGCTCTCACCACCCCTTCTCTCCCTGCAG
Seq C2 exon
GGCAACTGGGACACCTCGGGCAGCGAGCTGAGCGAAGGGGAGCTGGAAAAGCAGAGGCGGACTCTTTTGGAACAACTGGATGAAGATCAATGAGAACGTTATTTATACCAAATATGTTTACATTGTGGCATAATAAAAGAAACCAATGTCTAATTCAGGATGTGGGTTCTGATATCCTGAGTTCCATTGTTGAAATTACGGTGGGTTTTAATTTGACCACATAAATACATCCAAGTACTCTTACGGGCCCGGCACCAAACCTACAGACATGAATGCAATTCGGAGTTAAAGCCGAGTGGTGTTGGGCAGTAATGGGTGCTCTGCTCCCCTGGAGGGAGTCCTGGAAGGGAACAGCGCCATGGGAGACGCCTGGGCTCTCACTGGACCTCACCTGCAGGCTGAGCAGAGCCTTGGCACCTTTCTAGCGAAGCATCCCTGCAGTGCACTCCTTCCTAGAAAGGCAGTACCTGTTCTTCCCGGCCGCGCAGGCAGGTAGAGCTTCATTTTTAGAAAGATTCTTAATATAGTTTCTCGTGGCTTAACTTGTTTTATGAATTTGTTATTATTTTTGGAAGGGGGAAGGCAATGGGTGTAATGAATCCATTTCTGATCTGTACTGCAAAAAAAACTGTCAGCTATTGGAATTGCTCCTTCGTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012526:ENSGALT00000037747:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
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 Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGAGAAAGTGAAAAGGATAGAGCT
R:
ATGTCTGTAGGTTTGGTGCCG
Band lengths:
356-1533
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]