GgaINT0002242 @ galGal3
Intron Retention
Description
NA
Coordinates
chrUn_random:44416994-44417861:+
Coord C1 exon
chrUn_random:44416994-44417138
Coord A exon
chrUn_random:44417139-44417750
Coord C2 exon
chrUn_random:44417751-44417861
Length
612 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGA
5' ss Score
6.04
3' ss Seq
CACTGTTTCTCTCCTTGAAGCTG
3' ss Score
8.51
Exon sequences
Seq C1 exon
GGAGCTCTTTGCTTGCAGGAGCCCGTGAGCTTTGCGGAGGTGGCCGTGTATTTCAGCAGGGAGGAGTGGGCACTGCTGGACCCTTCGCAGCGAGCGCAGTACCGGGATGTGATGCTGGAGACGTACGAGTCCGTGGCCTGGCTGG
Seq A exon
GTGAGAGCTTTGCTGCCTTTCCTCCTCGTTAGGGCACCTGTGGCTGTGCAGGGTGACGGTCCGCAAGGAGAATGTACAGTGGTCCCAATGCTGTTAGGTACTAACACAACACCAAGGAAAGGAACGCGGATAAGCATGAGTTTCAGGAGGGATTGGAGTGCTCATCGCCCTGATGAATGCAGCAGAGTCACTGCTCACAAGCAGGCATCAGCCAGGAAGGGGGGGATCAGCACTCTGCAAACAGCCCTCGTGTTGCTGCTATGCGTGGTGCCACCGGCTCCAGCACCCAGACAAGTCCCAGGTTACTCCTGGAGCAGGATACGCTTCTCTGTTCAGCTCGCATGAACCTTTGTGAAACCTTGGTCACTGAGGAATTTGGAAGGAACACGAAGCTTTGTAAAGGGAATTGGGAATAATTCCCTTCCCTGCATGATTTTCAGACACGTTAAAGGTGTGCTGGGCTCAAAAGGAAGTCAGTATGTTTTCTTCCAGCGCCGTTCAGCCCTGATTGTGGTTTCACAAGTGGGGAGGGACACGTAGTTGGGTGGCTGGACAAGCAGCTGTGCCAGAATGATGGCAATGCTCTCATCTCCACTGTTTCTCTCCTTGAAG
Seq C2 exon
CTGAACTTCCAGTCCCCAAACCCATGGTGATCTCCCTGCTGGAAGGAGGGGAAGAGCCCTGGATCCCAGATGTGCACAGCCATGAGGACGTAGCGGAAGACTTTTGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000915:ENSGALT00000001344:2
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=0.368
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=83.7)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTTTGCTTGCAGGAGCCC
R:
TGGGCAAAAGTCTTCCGCTAC
Band lengths:
251-863
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]