GgaINT0145341 @ galGal3
Intron Retention
Description
NA
Coordinates
chr28:2783173-2783755:+
Coord C1 exon
chr28:2783173-2783283
Coord A exon
chr28:2783284-2783603
Coord C2 exon
chr28:2783604-2783755
Length
320 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
TTTATATTTGTGCGTTTCAGAGC
3' ss Score
9.2
Exon sequences
Seq C1 exon
ATGGGGCATTTTACTCAGCTACTTCCAATAATTTCTTGGGAACAGAACCTATAATACTTCGCAGCATGCAAAATCCTGTAAGAACAGAATTTAAGACATCTTGGCTAAATG
Seq A exon
GTAAGAAGCTTTTATTCATACTTCAGGCTCTCGAGCATCTGTTGGTGTTTGAACCATACCCAGAATGCAATAGTGTGTTAAGTTGGTTTGGCAGTGTCCAGAAATGAGGATTAAAAACATTGTGCCTAAGAACTACAGTGATGAGACAAGCCTCTGCCTCTCTCCAATTTCTTCTTTTAGTTTTTGGTATTTGTGAATCCTTTTCAACTCTTTACTCCACAAAAAAAGAGTTTAATTAGACTTACTTTTAAATCAATATCTGCTATTTGTGAGTTTTATTAGTGCTAACTTAAACTGCTTTTTATATTTGTGCGTTTCAG
Seq C2 exon
AGCCAAGCTTTGTCGGCATGGAAATAGTACCTGAAAGTGAGTTTAGTCCAGATGGAGATGATGATAAAATTTATGTGTTCTTCACTGAAACAGCTGTTGAGTTTGAATTCTATGACAAGATTCTGGTGTCCAGAATTGCCCGTATCTGCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003058:ENSGALT00000004831:6
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:
PF0140314=Sema=FE(8.5=100)
A:
NA
C2:
PF0140314=Sema=FE(11.5=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:
ATGGGGCATTTTACTCAGCTACT
R:
TTGCAGATACGGGCAATTCTGG
Band lengths:
262-582
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]