GgaINT0034481 @ galGal3
Intron Retention
Gene
ENSGALG00000002753 | F1N8A4_CHICK
Description
NA
Coordinates
chr9:11437558-11438352:-
Coord C1 exon
chr9:11438190-11438352
Coord A exon
chr9:11437702-11438189
Coord C2 exon
chr9:11437558-11437701
Length
488 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGC
5' ss Score
9.86
3' ss Seq
CTGCATTGTTCTCTTAGCAGGCT
3' ss Score
6.26
Exon sequences
Seq C1 exon
TAAAAGAAGCAAAAAAGGAGACAAAAATGGGAAAGGTCTGAGGCATTTCTCCATGAAAGTATGTGAAAAAGTTCAACGTAAAGGAACAACTTCATACAATGAAGTTGCTGATGAGCTGGTATCAGAATTCACAAATTCCAACAGCCACCTAGCTGCGGATTCG
Seq A exon
GTAAGCAGATGTGGGGACATTTTTTTGTCTAGCACTTCAGAATTGGCTGGTTTATGAAAGAATTCTCTCCCTGCTGGTTTTGCACTATCCTGACACATCCCATGGTCTCCCTCAGTTAACTATCTTATAAATATAACGACCTACTCTTTATATATCAAATTCCTTTTTTGATAAAACTTAAAACTGAGAAATGCAGTCTTTCTAAATTATAAACAAAATAGAGAAGTCTGCAAAAAAAAAAAAATCACTGAACGCTGCTCTACCCACCATACATGGCCTTGTCATGCTTTTCACCTGTAACAGACTTGCTGTGGTGGCAACTGCTGCTCAGAGGCTTCAAGGAGGTCTTAAACTTTCCTTTGCGAACAGACATGCTGATGTGATATTCAAGCACTAGCACCGATGACAGCATTGTTTTACTGTGTTTCTTGGTGGGGGTTTTTTTGAGTGCTTTAATTGTTATCAGTGCTGCATTGTTCTCTTAGCAG
Seq C2 exon
GCTTATGATCAGAAAAATATTAGACGGAGAGTGTATGATGCCCTTAATGTGTTGATGGCAATGAACATAATTTCAAAGGAGAAGAAGGAAATCAGATGGATCGGCCTTCCCACAAACTCAGCTCAGGAATGTCAGAATCTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002753:ENSGALT00000004347:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.382 A=NA C2=0.042
Domain overlap (PFAM):
C1:
PF0231915=E2F_TDP=PU(56.1=83.6)
A:
NA
C2:
PF0231915=E2F_TDP=PD(41.5=70.8),PF087815=DP=PU(4.1=12.5)
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:
AAAGGAGACAAAAATGGGAAAGGT
R:
CTCTAGATTCTGACATTCCTGAGCTG
Band lengths:
294-782
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]