GgaINT0003115 @ galGal3
Intron Retention
Description
NA
Coordinates
chrUn_random:54168226-54168844:-
Coord C1 exon
chrUn_random:54168734-54168844
Coord A exon
chrUn_random:54168655-54168733
Coord C2 exon
chrUn_random:54168226-54168654
Length
79 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
GGGTTTCCTCTGTCATCCAGGTG
3' ss Score
8.32
Exon sequences
Seq C1 exon
CTTCACTTCCAGCCCCCAAACCCGGGCTGATCTCCCTGCTTGAAGGAGGGGAAGACCCCTGGATCCCAGATGTGCGTAGCCCGGAGGCCGTGCCAGGAGACCTAAGCCCAG
Seq A exon
GTGAGGCGGTGGATCAAAAGGAAAGCTGGGGAATATTTGGGGCACCGTGTGCTATTTCTGGGTTTCCTCTGTCATCCAG
Seq C2 exon
GTGGAGATGAGATCACAAAACCAACGGAGAATCTGCAGGAAGTCGGTGTGGTCCGGAGGCAGTGGGGTAATGTCTCTGTGGGAATAAGCAGAAGGGATGTCCAAGGGGGCCTGAAGCAAGGAGAACACTTCAAGCAGCCACTGGGAAACTATGCAGGAAAGAGAGCAAGGAACCCGCTGGAACTCAGTGCAACTCAACAGCAGCCTGAAGAGGCCAGGAAGAGGGAAGTACGCCAGAAGAAAAAACACAACTCAAGCAATGAGTGTGCGAAAAGCGCTAAAAGGTATTCCAGACTCGTTAAAAACCATCACGTACACTCAGGGGAGAGACTGTACAAGTGCTCTGCTTGTGGAAAGAGCTTCAAATGGAGAGCCCACCTTACAGTACATCAACGCATCCACACGGGAGAGAGACCGTTTAAGTGCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000022057:ENSGALT00000035600:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.474 A=NA C2=0.486
Domain overlap (PFAM):
C1:
PF0135222=KRAB=PD(0.1=0.0)
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=16.0),PF134651=zf-H2C2_2=PU(69.2=12.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGATCTCCCTGCTTGAAGG
R:
TCCCACAGAGACATTACCCCA
Band lengths:
169-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]