GgaINT0040497 @ galGal3
Intron Retention
Gene
ENSGALG00000005795 | F1NAB8_CHICK
Description
NA
Coordinates
chr6:18671154-18671733:-
Coord C1 exon
chr6:18671598-18671733
Coord A exon
chr6:18671342-18671597
Coord C2 exon
chr6:18671154-18671341
Length
256 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
ATTCACTTATTCCCTAACAGAGA
3' ss Score
7.02
Exon sequences
Seq C1 exon
GAGAAAGAGAACTCTTATTTCACTGTTGAGTCCTTGACCAGAACCACACTTGACTTGTTCCTTGCGGGAACGGGGACAACCAGCACCACACTGAGATATGGACTTCTGATTCTCCTGAAACACCCAGAGATTGAAG
Seq A exon
GTAAGAGGAAAGGCAATGTTTACTTGAAGCCATATTATAAGCCAGGGGTTCCAAGCGCACAGTTTGTGTCACTACCACTGGTGGCAACAGTCCCTAATAGCAGAGATGTCCATCGGCCTTAGCTTTACTTCCAGGAGAGAGCCATCAGTACCAAGTATGTTCAGATATTCTTGGGGGATGGTGAAAAGCAAGTTTTGCTGCAACGGTGAGGAAAGGTTTTGGGAAACATCCAGTCAATTCACTTATTCCCTAACAG
Seq C2 exon
AGAAAATGCACAAGGAGATTGACCGTGTGGTTGGCCGAGACCGAAGCCCCTGCATGGCAGACAGGAGCCAGTTGCCATACACGGATGCCGTCATCCACGAAATCCAAAGATTCATTGATTTCCTTCCCCTTAATGTTCCACATGCTGTGATCAAGGACACCAAGCTCAGAGACTATTTTATCCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005795:ENSGALT00000040063:6
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=0.048
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(9.9=100)
A:
NA
C2:
PF0006717=p450=FE(13.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCACTGTTGAGTCCTTGACCA
R:
AGTCTCTGAGCTTGGTGTCCT
Band lengths:
292-548
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]