GgaINT0138215 @ galGal3
Intron Retention
Gene
ENSGALG00000007340 | F1NC10_CHICK
Description
NA
Coordinates
chr24:5616670-5617573:-
Coord C1 exon
chr24:5617475-5617573
Coord A exon
chr24:5616813-5617474
Coord C2 exon
chr24:5616670-5616812
Length
662 bp
Sequences
Splice sites
5' ss Seq
AACGTAAGC
5' ss Score
7.35
3' ss Seq
GCTTCTCCCTCCCTCCCCAGCAC
3' ss Score
9.87
Exon sequences
Seq C1 exon
ACACCATTGGAGCGCTGTGCCTGCTGCCCTCCCACCAGGACCTGCTCCCGGGCACGCCGTGCTGGGTGTCGGGCTGGGGCTACACCGGGCCTGACCAAC
Seq A exon
GTAAGCGTTGTCCCTGCTCCCTGCTGGCCCTTCCTGTGCTGTGTGTGCGGTTCTGCCACTGCTTCTCCCTCCTCTTGAAGCCCCACGAGTTCCTCAGTGTGAGCCCATCTTCATAGAATCATAGAATGGCCTGGGTTGAAAAGGACCACACTGACCATCAGTTCCAACCCTCTGCTATGTGCAGGGTCACCAACCAGCAGCCCAGGCTGCCCAGAGCCACATCCAGCCTGGCCTTGAATGCCTGCAGGGATGGGGCATCCACAGCCTCCTTGGGCAACCTGTTCAGTGCGTCACCACCCTCTGGGTGAAAAACTTCTTCCTAATATCCAACCTAAACCTCCCCTGTCTCAGTTTAAAACCATTCCCCCTTGTTCCATCACTATCCACCCTCACAGCCGTTCTCCCTCCTGTTTATACGCTCCCTTCAAGTACTGGAAGGCCACAATGAGGTCTCTGCAGAGCCTTCTCTTCTCCAAGCTAAACAATCCCAGTTCCTTCAACCCTTCCTCATAGGAGAGCTGCTGCAGCCCTCTGACCATCTTAGTGGCCCTTCTCTGGACCCGCTCCAGGAGCTCCACATCCTTCCTGTACTGGGGGCCCCTTCTGCCCCCTCCTGCTCCCTACGATCACGTTCCCCTCTTGGCTTCTCCCTCCCTCCCCAG
Seq C2 exon
CACAGCTCACCGAGACGCTGAAGGAAGCCCTCGTGCCGTTGATCAGCACCCAGAGGTGCAACAGCTCGTGCATGTACGCGGGAGAGCTCACGGGCAGGATGCTGTGCGCCGGGTACCCGCAGGGGAAGATCGATGCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007340:ENSGALT00000011874:8
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:
PF0008921=Trypsin=FE(17.8=100)
A:
NA
C2:
PF0008921=Trypsin=FE(25.4=100)
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:
ACACCATTGGAGCGCTGTG
R:
CTGGCAGGCATCGATCTTCC
Band lengths:
242-904
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]