GgaINT0050440 @ galGal3
Intron Retention
Description
NA
Coordinates
chr7:20137472-20138498:-
Coord C1 exon
chr7:20138436-20138498
Coord A exon
chr7:20137607-20138435
Coord C2 exon
chr7:20137472-20137606
Length
829 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TTTTTTTCTCTGTTACACAGAGT
3' ss Score
8.16
Exon sequences
Seq C1 exon
CGTTCAATAAAAGTAAGAGACTCAAAGTTTGGCTTGGCTCTTGTGATAGAGAGTTCTCAGCAG
Seq A exon
GTAAGAAGCTTTAATAGCCTTTAAATAGCAGTTTTCAGAATTAGATAACTGTGTATATAAAATGTTACAGTACTGCTTTTAGGCAGTACTTACAGTTTTCCTTTGGTGTGGCCATTAAAAGACAACTTCAAAAAATTCATCTTCACACCTCTTAAAATGTCAGCATGTTCAGGTAAATATGGCTGTTGTGAGTTATAGCATCTCTAAGCAGAGCAACAGTAAACCAGCCTGACCAGTTTAAAGTATTTAGCTGTTACAGACTGTGTCTTCTGGCAGATTATCTTTGAGACCTAATCTGTATTTAAGCACTATTTTTAATCTTTCTCAACTATGTGTGCTTTGCTCTAAGAAACAAATTCACTTTTCTTCAATTTGGCCTCAATCAGAAATGTTTTTAATGATGATTTAATAAATAGATAAGCTTGTATATAAAGTTCATTTAACATTTTATTTAGTAATGATCTCAAGGACTAAACACTTGCTGAGTAGCTAGGAGTAAATCACTATATCACTTCGTAACTTCCCCCACCTTTCTTAGATCTTGTTTCTCTAGGTAGGATGTTTGTTTCCCATTTATCTAATGGGCTAACAGTTTAAAGCTTATTTATCTCCTAAAGAGACATTATCGTTGTTTTTTGTTTCACTCCTGGTTTAAGTGGCAGGCTAAGATACCAAAATACAGGTAATGTTTTTATCATCAAAAATTGAATTTGCTATCATTAAACTACAAATCCTCACTGGGGAGGAGGGAGGGTTTAAATTAAATTTAAAAGAGGGAGTTGTTTAAATAATAAGCGATAATAAATGTCTTTTTTTCTCTGTTACACAG
Seq C2 exon
AGTGGAGGATATGTACTTGGTTTTAAAATAGACCCTGTGGAGAAACTACAGGAGGCAGTGAAAGAAATTAATTCACTTCACAAAGTTTATTCAGCTAACCCTATATTTGGAGTGGATTATGAAATGGAAGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009846:ENSGALT00000016007:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF072896=DUF1448=FE(6.0=100)
A:
NA
C2:
PF072896=DUF1448=FE(13.1=100)
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:
TAAAAGTAAGAGACTCAAAGTTTGGC
R:
TTTTCTTCCATTTCATAATCCACTCC
Band lengths:
190-1019
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]