GgaINT0046942 @ galGal3
Intron Retention
Gene
ENSGALG00000011009 | F1NN72_CHICK
Description
NA
Coordinates
chr7:21342703-21343452:-
Coord C1 exon
chr7:21343324-21343452
Coord A exon
chr7:21342795-21343323
Coord C2 exon
chr7:21342703-21342794
Length
529 bp
Sequences
Splice sites
5' ss Seq
TGCGTAAGT
5' ss Score
9.73
3' ss Seq
ACTGTGATTTAATCCTACAGGTA
3' ss Score
9.97
Exon sequences
Seq C1 exon
ATACACATTCACTGGAATTTATACCTTTGAATCACTTATTAAAATTCTTGCAAGGGGCTTCTGCTTAGAAGATTTTACATTTCTTCGAGACCCGTGGAACTGGCTAGATTTCACTGTCATTACATTTGC
Seq A exon
GTAAGTCTACTGTTTGTTTCTTTTGGTTTGGTTTGTTTTTTTGTTAGATTGTTTTTGTTAGTTTTTTTTTTTTTTTTACTCTTTCAAATAGGATGAACTTAGTGACTAAAAATTGCCTGATATTTTGTCAACCAGAACATTTGGAGCCTGGACTTCCTGCAGTTTCAATATGTTTCTTCTACATCTTTTACACATTTTAGTATTTCTAACTGAGCATGTGCTGCAGAGGCCAACATGGTGTGTCAACCTATTAGGATTGTGAATGCCATCAGCCTGAACTGTTCATATCCTGTCTCCTTTCTGCATATCAGAATTAAATCATTTTGACTTCCTGCTAGAAGCTGACAAAATTAGGTTTCAAAAACAAGTCAGTGTGGCTTATTTTGATAAATGAATTTAATTTTACGATCAGAAGGACATGTATAACACAGGCAAAATACAGTGAATGGTGAAAAGGTCTTAATCAAAGACCCAAGCAATAAGGATAAAATCTGCCTCAATTCTGAGTAACTGTGATTTAATCCTACAG
Seq C2 exon
GTATGTAACAGAATTTGTAAACCTAGGCAATGTTTCAGCTCTTCGAACTTTCAGAGTATTGAGAGCTTTGAAAACTATTTCTGTAATCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011009:ENSGALT00000017933:5
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:
PF0052026=Ion_trans=FE(15.9=100)
A:
NA
C2:
PF0052026=Ion_trans=FE(11.4=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:
ACACATTCACTGGAATTTATACCTTT
R:
GGGATTACAGAAATAGTTTTCAAAGC
Band lengths:
217-746
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]