GgaINT0014065 @ galGal3
Intron Retention
Gene
ENSGALG00000003917 | F1P2F9_CHICK
Description
NA
Coordinates
chr14:2250384-2250868:+
Coord C1 exon
chr14:2250384-2250546
Coord A exon
chr14:2250547-2250718
Coord C2 exon
chr14:2250719-2250868
Length
172 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAAC
5' ss Score
5.88
3' ss Seq
ATTTGACACTTTCATTTTAGGCA
3' ss Score
7.85
Exon sequences
Seq C1 exon
CTCTCCAAGCTATATGGCAATGTCTTCACCGTGCATTTCGGACCCAGGAAAGCTGTGGTGCTGGCTGGATACGAAACCATCAAGGACGCCCTTTTAAATCATGCTGAAGAATTTGGAGAGAGAGCAGAAATACCCATATTTAGGAAAATGACACGAGGAAACG
Seq A exon
GTAAACAGCCTTTTGGTTGTCATTGGTTTTTGTAGTTGGTCTGCAGAGACTGCAGAGAACATCTTATGACTGCCTTTTGTCTGTACAATCATGTACTGAGCAGCTCTGTAACAAGGCCTTACAGACATTTACTAACCACAGGCAGCATAAGGATTTGACACTTTCATTTTAG
Seq C2 exon
GCATAGCATTCAGCCACGGAGAGTTATGGAAAACTATGAGAAGATTCACCTTGTCCACACTGCGAGATTTTGGAATGGGAAGGAGAACAATTGAGGTCCGAATCCTGGAGGAACTAAATTCTCTAATTAAACATTTTGAATCTTATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003917:ENSGALT00000006238:2
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:
PF0006717=p450=FE(11.8=100)
A:
NA
C2:
PF0006717=p450=FE(10.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCATTTCGGACCCAGGAAAG
R:
TTCCTCCAGGATTCGGACCTC
Band lengths:
245-417
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]