GgaINT0100175 @ galGal3
Intron Retention
Gene
ENSGALG00000007943 | Q766Y2_CHICK
Description
NA
Coordinates
chr2:18247261-18247935:+
Coord C1 exon
chr2:18247261-18247371
Coord A exon
chr2:18247372-18247830
Coord C2 exon
chr2:18247831-18247935
Length
459 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
ATTTTAAAATTATTTTTCAGAAA
3' ss Score
8.48
Exon sequences
Seq C1 exon
AAAGAATATAGAAAAGATCTGGAGACTGAAATTATAGGAAAAGGGATGCAAGTTGGTCCATTTACACCTGAAATACAACGTGTCAAAAGAGCTTCAGAAATAGCAAGCCAG
Seq A exon
GTAGGCGTAGTTCAAAGCCTAACTTTTTAATTTTTGTGTCACAGTAAGTGCCAGATGTACATTGCTCAGAATACTTCTCTATCTCTGTAGAGGCTTTCAAACCTATATGAAATTAATTTACACATAGAAAAAAATCTGACTGCTTGATTCTTATTTGTATTTAGGCCTGTCATGCCACGTAAGTCATCTTGAAGTTTTTACATCTTCTTGCAGATCTTTTTACATTACCTAATGGGAAGAAAAAATATATATTTATATCTGTTCTCTTCACTGTCAGGTGTTCCACACAGATAGGGATGTAATGGTCCCACAGCGATAGGAATATCATGGAGGAAAGATGTTGAAATAAGTACTGTAAATGGCTGTTGACTCTTGTCAGCAATAAGCATTTTTTTTTTTTGTTGCAGTTTGTATATTCTAAGCCCTAACAAAACAGGAAATTTTAAAATTATTTTTCAG
Seq C2 exon
AAAATGTACAAAGATGAAGCAGAGAAGATGCTCTGTAACTATTCTGCTGTCCCTGACACTCCAGAGATGGAGAGGATAAAAAGCACTCAGAAAAACATCAGTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007943:ENSGALT00000012903:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.486 A=NA C2=0.571
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(35.7=27.0),PF0088013=Nebulin=PU(57.1=43.2)
A:
NA
C2:
PF0088013=Nebulin=PD(35.7=28.6),PF0088013=Nebulin=PU(69.6=45.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGAGACTGAAATTATAGGAAAAGG
R:
TGAACTGATGTTTTTCTGAGTGCT
Band lengths:
198-657
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]