GgaINT0125782 @ galGal3
Intron Retention
Gene
ENSGALG00000001692 | CAMSAP1
Description
NA
Coordinates
chr17:8899697-8900164:+
Coord C1 exon
chr17:8899697-8899812
Coord A exon
chr17:8899813-8900045
Coord C2 exon
chr17:8900046-8900164
Length
233 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
TACTTGCTTCTCTTCCTTAGGTC
3' ss Score
10.06
Exon sequences
Seq C1 exon
AGTTGAATCTATGGAGTCATTACCAATCCTGAGCAGAAATCCTAGCAGAAACACAGAAAGAGACTGGGAGAACGCTTCAACTGCATCTTCTATTGCTTCAGTGGCAGAATACACAG
Seq A exon
GTAACCATTTTCATTTTAGTTTGAGCATTTGTTGTGATCAGCAGGTTATGTAAAGCTCTGATACATTTGGTGTGACCTGTTACTTTTGAGAAATTATCAAGCCTATTTTCTTCTGTTTAATATCTACAAGTTATTGAAGAAAATGTTTACTTTTTTCTAGCACTTCTGATGAATTAAAATCTTAGTTGTCCAATGCTTAAGAACATTAAAGCTTACTTGCTTCTCTTCCTTAG
Seq C2 exon
GTCCAAAATTATTTAAGGAACCTAGCAGCAAATCAAACAAACCCATTATTCACAATGCTATATCTCATTGCTGTCTTGCTGGAAAAGTGAATGAACCACACAAGAATTCAATTTTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001692:ENSGALT00000002593:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.500
Domain overlap (PFAM):
C1:
PF086836=CAMSAP_CKK=PU(2.4=2.5)
A:
NA
C2:
PF086836=CAMSAP_CKK=FE(92.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTTGAATCTATGGAGTCATTACCA
R:
ATTGAATTCTTGTGTGGTTCATTCAC
Band lengths:
228-461
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]