GgaINT0124395 @ galGal3
Intron Retention
Gene
ENSGALG00000004719 | SPTAN1
Description
NA
Coordinates
chr17:5809489-5810014:+
Coord C1 exon
chr17:5809489-5809543
Coord A exon
chr17:5809544-5809817
Coord C2 exon
chr17:5809818-5810014
Length
274 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGC
5' ss Score
7.31
3' ss Seq
TCCTCTCTCTCTCCTACCAGCGC
3' ss Score
11.44
Exon sequences
Seq C1 exon
GTCCTGCATGGTGGAGGAGTCGGGAACACTGGAATCCCAGCTGGAAGCTACTAAA
Seq A exon
GTAAGCAATGCTCACCTGTCTGTAAAGCACCTCTCCTAAGTGATAACTCAGAAACACGGGGTGGGAATGAAAATGCGTGTGATCTTTATACATTCTGAATACTGAAGAAACCTTTATCTGATGTCTGCTTATATCCCAGGACATGAAACAACACTCCAACGTAGTTTTCCTTTTTTTTTTTTTTCCCCCTCCTAAACGAGTGTTCATTTTAAGGCTGGTTGGTGTTGGTTTGGTTTTTGCACTCCTTGATTTTCTCCTCTCTCTCTCCTACCAG
Seq C2 exon
CGCAAGCACCAGGAGATCCGGGCTATGAGGAGCCAGCTGAAGAAGATTGAGGACCTTGGAGCAGCCATGGAAGAGGCACTTATCTTGGACAACAAATACACAGAGCACAGCACCGTGGGGCTGGCGCAGCAGTGGGACCAGCTTGACCAGCTGGGAATGAGAATGCAGCACAATCTGGAACAGCAGATTCAAGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004719:ENSGALT00000007516:52
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.505 A=NA C2=0.297
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(16.8=100)
A:
NA
C2:
PF0043516=Spectrin=PD(56.1=90.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGGTGGAGGAGTCGGGAA
R:
CGAGCTTGAATCTGCTGTTCCA
Band lengths:
246-520
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]