GgaINT0048634 @ galGal3
Intron Retention
Gene
ENSGALG00000012526 | PRPF40A
Description
NA
Coordinates
chr7:37185936-37186639:-
Coord C1 exon
chr7:37186575-37186639
Coord A exon
chr7:37186110-37186574
Coord C2 exon
chr7:37185936-37186109
Length
465 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
GTAATTCATGTTTTCTTTTTGAT
3' ss Score
-8.26
Exon sequences
Seq C1 exon
CGAGTACCATCCAATGCTTCTTGGGAGCAAGCCATGAAAATGATCATTAATGATCCGAGATACAG
Seq A exon
GTACTGCTTGATTCTTTACTCATAATGTATTTCCATAAATGAGGGACTGGACTGGACTGGTGTCACTTATGTGAAGTGCAAGTCCTAGCATTCATTCTCCATTTGGGAAGGATGTGGCAGTTGTCAGTGGTATTCTGTACAATTGATACGGTTTGCTTAGGAATGAAGACACACCTTTGATTAGGATGGAGATAAATACTTTCTAAGTTATTCTGAAATGGGTGCCTGCCATAAACATTCACAGAGAAGTGGCTCATATCCGTTGTAAGAGTAGCATTGCAGGATGAAATGGGTGAATAGGGCCTGATAGTGGCCCTGAGGGAGGGGCAGGACTGTGGCTGGTTGTTTAGATCATATTTAAGTTTGTCTCAGAGATTTGGGTTATTGAAATCTGTTTCATGCTTTGGGTTTTTAGTTTTGATGTTTAAATGTAATTACCTTTCCTGTAATTCATGTTTTCTTTTT
Seq C2 exon
GATACGAAGTGCTTTGGCAAAGTTGAGTGAAAAAAAGCAAGCCTTTAATGCTTACAAAGTTCAAACAGAAAAAGAAGAGAAAGAAGAAGCAAGATCAAAATACAAAGAAGCTAAAGAGTCCTTCCAGCGTTTTCTGGAGAACCACGAGAAGATGACATCCACAACACGATACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012526:ENSGALT00000037747:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.379 A=NA C2=0.344
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:
TGTATCGTGTTGTGGATGTCA
Band lengths:
238-703
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]