GgaINT0094725 @ galGal3
Intron Retention
Gene
ENSGALG00000017398 | F1NHU4_CHICK
Description
NA
Coordinates
chr2:109234903-109235235:+
Coord C1 exon
chr2:109234903-109235054
Coord A exon
chr2:109235055-109235192
Coord C2 exon
chr2:109235193-109235235
Length
138 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CAAATACCTTCTTTTTACAGGGA
3' ss Score
9.02
Exon sequences
Seq C1 exon
CAAATACAGATACACTATAGGACGTGATCCAGGTGCCTGGTTCAAAATCAATAAAAACACTGGGGAAATCACACTGAGCAAAGTTATTGACTGGGAATCCTCCTATGTAATGAATGGGCAGTACACAGCAGAAGTTCTGGCTGTTACCAAAG
Seq A exon
GTAAGAAACAGATTTTGATTTCTGAAAGAAAACTCTTCATTCAATATATCTCTTTCTTTTTCCCCATGTTTTCCCATCTGAACTCATTGTTTATAGTATCAATATTATCTCCTGATCACAAATACCTTCTTTTTACAG
Seq C2 exon
GGACTCCTCGATATACTGCTACTGGAACCATTGTACTTACAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017398:ENSGALT00000036805:12
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:
PF0002812=Cadherin=FE(51.5=100)
A:
NA
C2:
PF0002812=Cadherin=FE(14.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAATACAGATACACTATAGGACGTG
R:
TTGTAAGTACAATGGTTCCAGTAGCA
Band lengths:
194-332
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]