GgaINT0032190 @ galGal3
Intron Retention
Gene
ENSGALG00000020738 | F1NCU2_CHICK
Description
NA
Coordinates
chr9:16778782-16779643:-
Coord C1 exon
chr9:16779502-16779643
Coord A exon
chr9:16779160-16779501
Coord C2 exon
chr9:16778782-16779159
Length
342 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAAT
5' ss Score
3.81
3' ss Seq
CCTTTTCTGTCTTTTCCCAGGGC
3' ss Score
12.19
Exon sequences
Seq C1 exon
GACACCATCGTTCTGGTAAATATCGACTCTGTTCTGTCTGATCCTGAAAAATGGGAGACACCTGATCAGTTCAACCCGGGACACTTCCTCGATAAAGATGGAAACTTTGTACACAGAGAAGCATTCCTACCATTCTCAATAG
Seq A exon
GTGAATGCACTGAACAGGGATTGATTTATTCCGTGTGATAGTAACTAAAGACACACTCGTTCCTCAGTGTGAACTGAGAAGGCATCTACAAAGAGGTATAGAAATGCATTCCAGTGTCTTACAGAACTCCAGGAAGAGAAAAGCCCAATTGCACGTGGAAAAGGTTGAAAGAGAAGGGGTGACCTACAGAGGCCTTTTTCTCGAAAGATCTAGCTTCTCGTGTAGTAGAGACCCAGCTATCACAACAGTAGCAGAAAAATTCATAATGCTAATAAGCCCAGAGCTAGAAAGGTAGGTTTGATAGAAACCCTTTGGCTGATTGCCTTTTCTGTCTTTTCCCAG
Seq C2 exon
GGCACCGTGCATGCATGGGGGAACTGCTGGCAAGGCTGGAGCTCTTCATCATCTTCTGCACCCTGCTGCAGGCGTTCACCTTCACCCTGCCAGATGGAGTGAACGAAGTCAGCACCAAGTTTGTTTTTTCAAGTACAAAGAAGCCACCTCCACACCAGATCTGTGCCATTCCTCGGTAGGAAACAGTGTCACACAGATTCAGGGAAGACTTAACTCGGTGTGATTCTGCATGTGGAAACTTACTGTGTCTTAAGATTTTTGCTTTCTTCTTGATTTGGTCAGTTACTGCACTGAAAAATGCTTTTCGGACAGTTGCATCCTGTAAAGTCAATATTTTGTTCTTGTTATTAACGCTTGGTATATTTGTCCCAGTGTGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020738:ENSGALT00000013299:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(10.3=100)
A:
NA
C2:
PF0006717=p450=PD(12.1=91.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGACTCTGTTCTGTCTGATCCT
R:
CCACATGCAGAATCACACCGA
Band lengths:
355-697
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]