GgaINT0128367 @ galGal3
Intron Retention
Gene
ENSGALG00000023800 | Q90900_CHICK
Description
NA
Coordinates
chr18:494278-495724:-
Coord C1 exon
chr18:495586-495724
Coord A exon
chr18:494397-495585
Coord C2 exon
chr18:494278-494396
Length
1189 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTA
5' ss Score
7.52
3' ss Seq
AATCTCCTCCTGCTATTTAGTTG
3' ss Score
4.72
Exon sequences
Seq C1 exon
AGTGCCATTGACATCCTGGGCTTTACTGCCGATGAAAAAGTGGCTATTTACAAGCTGACAGGAGCTGTCATGCACTATGGCAACCTGAAGTTCAAGCAGAAACAAAGAGAAGAGCAAGCAGAGCCAGATGGCACAGAAG
Seq A exon
GTACTAGCGAGCTCTGTTGTTGACCTATTAGGAATAGAAGCAACAGTAACAGTAATTTGAAAGATAGGAGAGAAGAGTGGAAAAGTATAAAAAAAAGGTATCTAGGTGGAGCTACTACCCCATGGAGCTAGTATAAAACTGCCATCCGTTTTTTCAAGGACTACCTAATCTTTGCCTGACTTATGAATTGTGTGTGTGCCCATTAATTAAATCCTGGGCTTTCATAGTTTTAGATAGCACAGTCTGATGTGCTCATATAGGATAACCACTAATGAGGAAATGGTTTCATAAAACATATTTCTAGTTGCCTTTTTTTTTTTTTTTTTTGATAAAGTAGATGCACTGAATTCACTGTTTATAAAGCATATAATAGGGATTTTTTTTTCTCAGGAGTAAAGGGTACTCTAATTTCTTATGGACATTCAAACTTGAATGGAATATAATGGAATGGAATAATGGAATTCTTTGAACAGCAGTCTAAGTGAAGCATAGGTACACATAATAGGCTAGGGAAGCAGTGACTTAGACCTTCTGTTTCTCAGCTGATTACTTAATGACTTGAATAATGTAGACATGACTTAAATAAATTAAGCCCTGACTACTTCTTCCAAAGAATGTCTTGAGACCGTCAGCTTCAGGACTAGATTTTGAGGTTTTGATCCTGATTGAATGAATGCACCTGCCTTTTCACTAAAGCTGTAATAACCAGATTCAAAAAAGGGGCAACCAATTTTTTCCAGTAATTTTGGAATGCATTCCTTTTGAAGGCTATTTTTGCTGCTGAAGAAATATGCAGGGAGCCCAAGTGCCTAAGTATGTTTTGGATTACAGTGAGGCAGCAATCCTCGTAACACCTTGCTGGTTTTGTTCCAGGCTTATAGATAGCAAATAGCTCTAGATAGAAGGGAAAACTTCAGTTTTCAGTGTGAATTTTTAGTAAAGAATTTGTTTCTAGATGGTTTTGGGAAGATTTGAAAAAACACAAATACCACTTAAGCATCCTACTCTGAATGATGTTCAAAACAAGGATGCATTTTCATTCAATGACTGCCATACGTCCTGTGAAATACAGCAAGCAGAAGGTGATCACAAGAACATTTGATACGGCAGTAGCTTCAGAAAGGGTTTATCACTCAATATGCTGCGTATTTTGTTAATCTTAATTTTTCAATCTCCTCCTGCTATTTAG
Seq C2 exon
TTGCAGACAAGGCTGCCTACCTGATGGGTCTGAACTCAGCAGACCTGCTCAAGGCCCTGTGCTATCCTCGTGTCAAGGTTGGGAATGAGTACGTGACCAAGGGTCAAACTGTGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023800:ENSGALT00000001427:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.213 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006316=Myosin_head=FE(6.7=100)
A:
NA
C2:
PF0006316=Myosin_head=FE(5.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCATTGACATCCTGGGCTTT
R:
CTGCTGCACAGTTTGACCCTT
Band lengths:
255-1444
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]