GgaINT0034061 @ galGal3
Intron Retention
Gene
ENSGALG00000008105 | F1NDQ4_CHICK
Description
NA
Coordinates
chr9:16772978-16773827:-
Coord C1 exon
chr9:16773665-16773827
Coord A exon
chr9:16773128-16773664
Coord C2 exon
chr9:16772978-16773127
Length
537 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCGG
5' ss Score
8.17
3' ss Seq
TCTTCCTTGTATGGACTCAGGGA
3' ss Score
6.42
Exon sequences
Seq C1 exon
TTGGCAAAAACTTACGGCAATGTGTTCACCCTGTGGTTTGGATGGGCCCCGGTGATCATACTGAATGGATTCCAAGCAGTGAAGGACGGTATGACCACACATCCCGAAGATGTGTCTGGAAGGCTGGTGTCTCCTTTCTTCAGAGCTATGGCCAAAGGAAAAG
Seq A exon
GTGCGGTGGTTTTGTTTTTTTTTTGCACAGAAACATTATATTTACAACTGCAACTCTTTTGTAGCTGGTGCCCACCCTAACAACATCACAATGGCAGGGTTTGTCTATGAAGGATGACTTTCTCCAACCTCACTGTAGGTTCCACACTGGCAGTTTCCAAGCTCCTGGTTTTCTTCTTTCCATCATTATTATCTCAGGCCTGTACCTAGCCTGGCTAAGCAATCTGAGTTTGATTCAGCATTGATGAAGACCATAGTTAAGCCACTTCGCAGCTCTGAGTTCTTCCTATTTGGCACAAAAAACACATTATAGGTGTATGCCTGTGAATATTTTTAGGACTTCGTCTGTTGTAACACATTGAAGTCTCCAAGCAGCTGCAATCGTCAGTCTTGCAAAATGTTTCCTGACAGGCTTCTACATCTCCACTTGCAGCAACACTGTGACATTTAGGAATGAGAGTGTTTTTTCAGGTGAAAGAATGCCTTCGTCTGTAGTAAATGTTAGCATGGTAAAGAATTCTTCCTTGTATGGACTCAG
Seq C2 exon
GGATTATGTTGGCCACTGGTCACATGTGGAAGCAGCAGAGGAGGTTTGCACTGAAGACTCTACGCAACCTGGGTCTGGGGAAGAGAGGTCTGGAACAACGAGTGCAAGAGGAGGCCCTCCACCTGCTGGAATTCTTTGCAAGTTTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008105:ENSGALT00000013160:2
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:
PF0006717=p450=FE(11.8=100)
A:
NA
C2:
PF0006717=p450=FE(10.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCAAAAACTTACGGCAATGTG
R:
TTCAAACTTGCAAAGAATTCCAGCA
Band lengths:
310-847
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]