GgaINT0040498 @ galGal3
Intron Retention
Gene
ENSGALG00000005795 | F1NAB8_CHICK
Description
NA
Coordinates
chr6:18670469-18671341:-
Coord C1 exon
chr6:18671154-18671341
Coord A exon
chr6:18670611-18671153
Coord C2 exon
chr6:18670469-18670610
Length
543 bp
Sequences
Splice sites
5' ss Seq
AAGGTCTGT
5' ss Score
6.43
3' ss Seq
TTCTCTCTGCACTAATTTAGGAC
3' ss Score
8.4
Exon sequences
Seq C1 exon
AGAAAATGCACAAGGAGATTGACCGTGTGGTTGGCCGAGACCGAAGCCCCTGCATGGCAGACAGGAGCCAGTTGCCATACACGGATGCCGTCATCCACGAAATCCAAAGATTCATTGATTTCCTTCCCCTTAATGTTCCACATGCTGTGATCAAGGACACCAAGCTCAGAGACTATTTTATCCCCAAG
Seq A exon
GTCTGTTTCTGGGAACATTCATAATCTCTTGCTGGGCTGTGCTAAAATGAATCACATTTTACTTAAGTTTCAAACACACCGGAATGCGATTCAGAATCAGAATAAGTTGATCTGGGAGAAGAACTGGTGCTTTTGAGGTGCTAGTATGCTTTAAGTTGTACGGTGTTGTAGCCTTCCTTTTATGAACCAGTATTTTCCCACTTTTTGTTTGCAATACAAGTAATTATTACTGAATGAATGGCAACTATGGAAAAAAGCAGCTAGTTATCTCCTAGATATGAATGGGTGCTGTGAAAAAAGAACTCTGTTTCTCTAAGCCTTCTAGATGTCCCCCAAGACTGCAACGCTCACCAGTTTTGCAGTTCTACCAGCTTTTCTCATGACATTCTAACACTGCTAATTCTGACTGACAGTAGTGCATAATGGAACCACATAGCAGTTAAATCCAAGGGGTTGCTCGTGTATTCAGCTCTGGGAACTGCTCAGTGGGGCTTTACTTTGGCATGTCTCCACTTCAACTTTCTTCTCTCTGCACTAATTTAG
Seq C2 exon
GACACCATGATATTCCCTTTGCTGTCTCCCATCCTGCAAGACTGCAAGGAATTTCCAAACCCAGAAAAATTTGACCCAGGACACTTCCTGAATGCAAACGGCACCTTCAGAAGGAGTGACTACTTCATGCCATTCTCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005795:ENSGALT00000040063:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(13.6=100)
A:
NA
C2:
PF0006717=p450=FE(10.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGCACAAGGAGATTGACCGT
R:
CTGCAGAGAATGGCATGAAGT
Band lengths:
326-869
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]