GgaINT0111811 @ galGal3
Intron Retention
Gene
ENSGALG00000012483 | F1NDU7_CHICK
Description
NA
Coordinates
chr1:53459253-53459930:+
Coord C1 exon
chr1:53459253-53459369
Coord A exon
chr1:53459370-53459761
Coord C2 exon
chr1:53459762-53459930
Length
392 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGA
5' ss Score
9.63
3' ss Seq
CCATGTCTTCTCCTCCACAGACT
3' ss Score
10.1
Exon sequences
Seq C1 exon
GGGTCCCCTGTAGTCCTTTCACCCACCGTTGTGATGATGGGACTTGCGTAAAGAAACCCAACCCACTGTGTGATGCCACTGTGGACTGCAAGGATCTGTCTGATGAGAAGCACTGCG
Seq A exon
GTAAGAAAATGCTCAGCCCCACGTTAGACAGGCATGTTCAGGATGCCCCACAACCCCAGTTTGGGCATGGAGAGAGCTTATGCTTTGATTGCCCTTCTTGGTATCTCTGGAGCTTCTGCATTGCCAGGTAGGGCAAAGGAGTAAAATCATAGAATCCCAGAATGATAGAATGACTTGGGGTCAGGAGGGGACCTCAAAGATCATCAAGTTCCAATCCACCAGATGAGGGTGTCCAGGGTCCCATCCAACCTAGCCTTGAACACCTCCAGGAATGGGGCATCTGCAATCAAATTATCAAACTCTTCAGTCAACGAAACAGAAAAGAAAGGGCAGACACAATATCTCATGTTCCTTCATCCACTAAAGAATGAACCATGTCTTCTCCTCCACAG
Seq C2 exon
ACTGCGGGCTGCAGGCCCCTCTCAGCAGGATCATTGGTGGTGCTAACTCCGTGGAAGGGGAATGGCCATGGCAAGCCAGCCTGCAAGTCCGGGGACGCCACATTTGTGGGGGAACGCTCATTGCTGACCGCTGGGTGGTCTCAGCTGCACATTGCTTCCAGGATGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012483:ENSGALT00000020394:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005713=Ldl_recept_a=WD(100=95.0)
A:
NA
C2:
PF0008921=Trypsin=PU(20.0=80.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGTCCCCTGTAGTCCTTTCA
R:
CTCTCATCCTGGAAGCAATGTGC
Band lengths:
286-678
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]