GgaINT0008014 @ galGal3
Intron Retention
Gene
ENSGALG00000007758 | F1NRB3_CHICK
Description
NA
Coordinates
chr15:11039694-11041710:-
Coord C1 exon
chr15:11041465-11041710
Coord A exon
chr15:11039815-11041464
Coord C2 exon
chr15:11039694-11039814
Length
1650 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CTGTCCTTTCTCCCTCCCAGGTG
3' ss Score
12.77
Exon sequences
Seq C1 exon
GTGAACTTCAATGAGCCGCTCTCCATGCTGCAGCGGCTGACGGAGGACCTGGAGTACCACGAGCTGCTGGACAAAGCAGTCAAGTGTGAGAGCTCCACAGAGCAGATGTGTTTCGTGGCAGCCTTTTCGGTGTCTTCCTACTCGACGACGGTGCACCGTACAGCGAAGCCGTTCAACCCGCTGCTGGGGGAAACCTATGAGCTCGACAGGCTGGAGGAGCTGGGCTTCCGTTCCCTGTGTGAGCAG
Seq A exon
GTGAGCCGTGCAGAAGGGCTCCCCGTGCCTGTCCTGCTGTTTGTGTCCGGCCAAAGGAGCCCTTTCTTGCAGGAGATGCAGCATCTCCCCATTTCAGGCTGGATGGAACCTTAAGATCTCGTTCCTTCCTTGTTATACTGCAGAGTTTTAATTTCCAAGCTTGGTGGCAACCTGAGAACCTCCAGCATCCCCGTGTGCTAATCACAGAGTACATCTGACACTCATCTATCAACCAGCAGGTCTTAATTAAAAACCTGGGGAGCTTAATGGGTTGAGACCTTGGAAGGAAATTGGCTCTTTAAAGCATAGCATACTCAGCTGGTGCTTCCCGTCCTTCTGGGGATGGACAGAGCTGTTTATCACTGCTGAAGGCAGGACATTGTTTTGAGGGGGCTCTGGGCTCCCCAGGAGGTGGCTGTGCTGTCCCAGGGACAGTGTGACCATCGTGTTTCCCACCACTCAGGAACAAACCCACAGGCCTCTGTCACTGCAGGGACCAGTGAGTGTTCAAACCTGCAGTGCCATTTGGCACTGAGACCTATGGGCAGAGGGCTGCGTGTTAGCTGTTCTGTGGGGCTGTGCTTGCACACTGTGTCCTCCGGGTGCCCAGTCCTATTTAGTAGTGCTCTGGAGATGCTGCACCTTGTTCAGAGGGAGGCAGGAAACTTTTTGACTAGAGGAGGCAGCCTAGATAGCTCCTCAGAAGGGCACGATGTGTGGAAAGGGTTTTGCTGCTAGTCCAGATGTGGAGCAGGCTCTAGGTCACATTGTGCCCCTCTGTGCCAATGCGAGCTATGAAGTGAGAGACAAAAGTAAAGGTGCTTTGGTAGATTACCTCCATTTGTATCCCTGCTGGCCCTATTGTAGGTATTTCTGACCCTTCTAAGTGCCTGTTCCAGCTGCCTTGGGTGTATGAGTACATGAGTTTTGGGTGCTGATGAATGGTAGCAGCTGGAGAAGTTCATCCAAAATTCAGTTTACCATAACTCGGAGCAAAACAACTCTGTTGCAGCTCTCTGGAGCATTTGATCCATGAGCAGAGCCTCTAAGTCTGCCTAAATCCTGGCCCCATCTCAAAGGGCAGATTGCAGGCAGGCTTGCAGCAGCCCAGTGTTGGTGGTGCAGTCAGTGCGTGCTGCCCTGGGTTGTGCTGGCACTGTGGGATGGATAGATGGACAGACAGACGGATGCTGTTCCCGTGGCTCTGAACATCCCTTGGCCCACTGACATGCTGAGTGTGGCATTGGTAATCCAGTGCCTGAAATCCAGTTATCCAAATAGGATTTTCTCCTGCCGGTGACAGTGGGATTTAATGGAGAGGTTTTGGCTCTGCTCACGGTTGTAATCCGGTTGCTCAGGGCACTCAGGCTGTAATTACCCTGGTGCAAAGTATCTCTGAACACAGCAGCTTACATATTCCTTCCAAGGGTGCTCGAGTGGTGTCCCTGGAGCCACCAGGCGGGCTGTGCTGCAGCCACATCTGCTTTTTCTGTCCGTGTCCATGGGAAGGCACTGCAGTGCTGGACAAGATGCAGGCTCAGCCTCTGAGCATCCCTGGGACCAAAGCTGTCACCTCTCTTTGGGTCCTGTGGTGATGACTGAGCACTGGATGGGGCCAGCATCTGATGGGCTGTCCTTTCTCCCTCCCAG
Seq C2 exon
GTGAGCCACCACCCCCCAGCAGCTGCCCACCACGTCTTCTCCAAGCGAGGCTGGACGCTGTGGCAGGAGATCACCATCGCCAGCAAGTTCAGGGGCAAATACCTCTCCATCATGCCTCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007758:ENSGALT00000012578:8
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:
PF0123713=Oxysterol_BP=FE(21.4=100)
A:
NA
C2:
PF0123713=Oxysterol_BP=FE(10.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCAATGAGCCGCTCTCCATG
R:
TGGAGAGGTATTTGCCCCTGA
Band lengths:
349-1999
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]