GgaINT0039976 @ galGal3
Intron Retention
Gene
ENSGALG00000001915 | Q8UUX6_CHICK
Description
NA
Coordinates
chr8:1074610-1075802:-
Coord C1 exon
chr8:1075703-1075802
Coord A exon
chr8:1074706-1075702
Coord C2 exon
chr8:1074610-1074705
Length
997 bp
Sequences
Splice sites
5' ss Seq
GAGGTATAA
5' ss Score
5.96
3' ss Seq
ATTCTTCTGTTTCAAACTAGGAA
3' ss Score
9.63
Exon sequences
Seq C1 exon
ATTGGTTATTTATGGACAGTACTGCAGCCAAGTGGAAACAGCCATATCGTGCTTAGACAACATTTCTAAGACAAAAGAAGATGTTAAGTTGAAATTAGAG
Seq A exon
GTATAAGAATTTTCTAATGTTTGTGTGTGTGTATTGTGTGTTCTGATAACTATGTCCTGCTTTCATCCAAGTCAAAAACCTAGTGGATTAAAACTGAATTTGTTCATCTTTTCCTTGTAATTTATGGGAGCCTCTCTTCAAGTTGATGTTTATCTACTGAGATACAGATCCTGGGAATTCTGAATGGATGAAGTGAGTGAAGCTTTTTACTGGCAGTAGTAGGGTTAGGATTTATTCTTGAAACTGATATCCTTCTGTTTGTCATAGCTTGGCTGAGAATACAGAATTGCAGAATAACTCAAGGTGGGAGGAACTTCTATGCCAAATAAGCCTATTTTGAAGCTTCTAAGGGCTTGCTGCCTACCAAGACACCCTCCTTAGTTCTTTTCAGCTGGGCTACTGGCTGGCACTCAGGGTTAGTATGACCCGAGTTAGTGTGTTCAAGGTGTAGTACTTTGCTTTTTCCGTGATGGCTTCAGGAGGTTGCTTCTGGATGTGCCCTGAAGAGCATCAGCTGCACCTGCAGTCTGGTGTTTTATGTGGACATGCTGTGGATATCTTTTCACTTCATTGCTAAAAAATATTAAAACTGTTAACTAGGAGGAGAAAGCAGGAAACTCAGACATTGGGTACCTGTAGTAGATCTGTTCTGGATATTTACAGTCACCTCCTCTGTTTGCCCAGAAATGGCTTTCAAGAGCGCTTACTTCCAAAACTGTCTTTTCCTTCTTTGAAGGTGATTGCAATGTCTGCTGCCTTTGCTCTGCTTATAGGCAATATCTTTTTTTTTTTCCAGTTCAATCCTATGCCTAATTTCTGTTGTGATGTTTATTCCATGTTTTTTCTTATTTGTTCCAGTTTGTTAAAAGGCTTTATCTCACATTTGCTCAAGTTATTACCGTAGCCAATGAGTCACTTCAACATGATATTCATGGAAATTAAATACTTATTTTTTTTTTAAACTCTTGTTCTAATTTATTCTTCTGTTTCAAACTAG
Seq C2 exon
GAATGTTCCAAGAGGGCCAATAATGGGAAATTTACTTTGCGGGATCTTTTAGTGGTTCCAATGCAAAGAGTGCTAAAATACCACCTACTGCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001915:ENSGALT00000002946:8
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:
PF0062115=RhoGEF=FE(18.9=100)
A:
NA
C2:
PF0062115=RhoGEF=FE(17.7=100)
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:
TATTTATGGACAGTACTGCAGCCA
R:
CTGGAGCAGTAGGTGGTATTT
Band lengths:
190-1187
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]