GgaINT0123726 @ galGal3
Intron Retention
Gene
ENSGALG00000001964 | INPP5E
Description
NA
Coordinates
chr17:8570224-8571541:+
Coord C1 exon
chr17:8570224-8570360
Coord A exon
chr17:8570361-8571112
Coord C2 exon
chr17:8571113-8571541
Length
752 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
GGCTTGTTTTTATATTGTAGTAT
3' ss Score
6.31
Exon sequences
Seq C1 exon
GATCGAGTAGTGTTCCGCAGTCGGTACAGAGATGACATCCAAGCTGTTAAATACTCATCTTGTCCTGTGATCAAAACTTCAGACCACCGTCCTGTGTTTGCATTGTTCCGTGTGAAAGTGAGGCCTGGCAGGGACAA
Seq A exon
GTAAGTACCTGTTGGTGCTGTTCTGTGTAACTGTACATGTCTGCAGTGATCCTGAGGATGTGCTCCCTTTCAGTGTTTGTCACATCAGGAGAGTCCCTGAAATAGGGAACTGCAGGGGATTAACTCTGTGTTTGTTTTTTACCCAATATATGTTGCCAATGGTCAAAGCAGTAATAGTGCTTAAGCCTTGCAGCTGACATCAGAAATCCTGGCTGCCAGGTCTCTTAATCCTCCTGAGGGAGATTAATGGAGTCTGCTGCAGTTGGCTGAGTCTGTGTTCTACCTGAGATGCAGCTCTCTGGTTTGCCTGTAAGCATGGGCAGATTTCATCTTCTGTTTCTCTTTCCCTTTTTTGGGGTCGGTGCTGTTTGCACTCCCAGTGGTGGCTGCATTCCAACATAGCTGTATGCCTGTGGAGAATTTTACGTTCTCCAAGTTTCTTAATATTCCACTGTCAGCTGCTGTGCCATTGTAACTCCTCAGAAAATGCAGTTAAGTCACTGAAATTGAGTTTGCCCCTTTCCTGCAAGTAGCCTGCTGAGGGAGTTCGAAACCCAGGTATCTAGAAAAGGACAATTTCATGGAGCACTTCATCAGCAATGCAATTAGAATTGGGATTTGGGGGAGTGTGGGGGGCTAAATAAAGGTTAAAAAAAGAAGTCTGGCCCTTTGTTTTATGAATTAGTTGGTAAACTCTGGGCAAAGAAGAATGCATTTGTGCCCTAATCTAATGGCTTGTTTTTATATTGTAG
Seq C2 exon
TATTCCACTTGCTGCGGGGCAGTTTGACAGAGAGCTCTACTTAATTGGAATAAAGAGACGGATTACAAGGGAACTTCAGAATCGACGACAGCAAAAAGACCAAAAATCCAGCAGCATATGTAGCATTTCCTGAGCTAAGAACTCTGCAACGCTTGTGTTAGAGGTGCCTGGAAGGAGGATTTCAAGCCACGGCAAAGTCTGCAGGGAATTGTCTGCTTAAGCACCTCTGGCAGTTGCTGGGGCCTGTGAAGAATGTCTTAAACCTCATCCTGGATTCATTTGCATGAGGTAATCCATACAGCTCAAATGCTTTTGCTGAAGAAAACGGAGTTGGTTAGTTAGGGCATCCATTCCAACAGACGCAATATTTTTGACCAATACTGTCTTTGGAAAGACCAGATGCAGTCTGTCTCTTCTAAGATGACTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001964:ENSGALT00000003045:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.341
Domain overlap (PFAM):
C1:
PF0337218=Exo_endo_phos=PD(10.0=60.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCAGTCGGTACAGAGATGAC
R:
AACTGCCAGAGGTGCTTAAGC
Band lengths:
357-1109
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]