GgaINT0138217 @ galGal3
Intron Retention
Gene
ENSGALG00000007340 | F1NC10_CHICK
Description
NA
Coordinates
chr24:5616080-5616586:-
Coord C1 exon
chr24:5616434-5616586
Coord A exon
chr24:5616286-5616433
Coord C2 exon
chr24:5616080-5616285
Length
148 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGG
5' ss Score
8.98
3' ss Seq
CGTTGCTTTTCTTTGCCCAGATC
3' ss Score
8.58
Exon sequences
Seq C1 exon
GGTGACAGCGGGGGCCCCCTGGTCTGCCAGGATGAGCTGGCGTGGCGCTTGGTGGGCATCGTCAGCTGGGGCCGGGGCTGCGCCGAACCAAACCGCCCGGGGGTTTACACCAACGTGGCTCAGCTTCTGCCCTGGATTTATCACATCACCGAG
Seq A exon
GTATGGCTGCAGCCAACAGCAGCACAGCTTCGGCCTCAGTTGCAGCTGTGTGCGTTGCAGAGTGTGTGCATAGAGAAACCTCACAGCCAGCCCTGCTGTTAGCACCCTGCCCTCACCCCACTGCGCTCCGTTGCTTTTCTTTGCCCAG
Seq C2 exon
ATCTACTAGAAGCGATGAGAAACCTCCCACGGCGACCCACAGCCCATTGCACATCGAAGTGAAGGAAAGCCCAGGACTAATTCACACTGTTCCTAAAACCCCTAAAGGAACGGCCCCAGACACCACCAGAACACGGGGGCAGTATAAATAGTTTATTAAAGAAAATAGCAAATTGCATTTGTGTGAACAATGCACGTGGGAGAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007340:ENSGALT00000011874:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PD(0.1=0.0)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTTTACACCAACGTGGCTCA
R:
TCTCCCACGTGCATTGTTCAC
Band lengths:
255-403
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]