GgaINT0126677 @ galGal3
Intron Retention
Description
NA
Coordinates
chr17:9070738-9071563:+
Coord C1 exon
chr17:9070738-9070864
Coord A exon
chr17:9070865-9071398
Coord C2 exon
chr17:9071399-9071563
Length
534 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
GTTAAATTTTTATATTGTAGGTT
3' ss Score
7.89
Exon sequences
Seq C1 exon
TCTTCAGAAGCTTCAAGGAGATATTCAAGCTGCAGAAGGTAATGAAGAACATCACCTCCAAATGCTCAGAGAAGTGGAGGACATTCTTCAGGTCAAGAAAACTGAACAGGAGAGACTGAAAAATCAG
Seq A exon
GTAAGGCTCATCTGGTTAACTCAGAAGTGTCAGTTTAATTGTTGTTGTTATAACTGGGGACTGTGAAGTGTCTTCTATTCCAAACTGCCTTATCTGAATAATTCTTAATTCTATGATATTTTTTTTTGTTACTGTTGGTAATTTGAATTACTGTTTGTTTTTTTTTGGGGGGGGTGAAGGTAATGTTTTCTATTTTGGGGCTTGTGATAAGTGTGACCCCAATCTTGCCTGCATTTCTGGGTAATAAATGTTACTGCAGAGTTCTTTACGTTCTTATTGCACTTGAGAATAAGAAGCTTAAGTACTTCTGAGGCACAGGGCTGCACTGTTCAGATCAAAACTTAGTTGTCAGTACTGACTCTTCTACAGCAGTGTAGCACATGGAGCTCATTGCTCTGATGGAATTCTTACATGATGTACAATTCAAGTAAATCTGTAAGATGGGGAACAGTATTGCATTTATTTATTTTTTGTATGCGTGTAGCTATAAAACGTGTCCAGATGTGGTAGTAGTGTTAAATTTTTATATTGTAG
Seq C2 exon
GTTACTGCTCAGCAACAAGAGCTGTTGTTTCTGGAGCAGCAGTTAAGTCAAAGGAAAGAACAGCTCCGTGTCCTTCAGGACTGTATTTCTCAAAAGAAAGGTGACCTCAAAGAAGCTCTTCGAGATGGGGAGACTGAAGCAAAGGAAAAACAGCGCCAAATAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001513:ENSGALT00000002299:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.093 A=NA C2=0.200
Domain overlap (PFAM):
C1:
PF047288=LPP=PD(47.8=51.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTTCAGAAGCTTCAAGGAGATAT
R:
TTGGCGCTGTTTTTCCTTTGC
Band lengths:
286-820
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]