BtaINT0033017 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001090 | CCDC173
Description
coiled-coil domain containing 173 [Source:HGNC Symbol;Acc:HGNC:25064]
Coordinates
chr2:26671094-26671556:+
Coord C1 exon
chr2:26671094-26671267
Coord A exon
chr2:26671268-26671362
Coord C2 exon
chr2:26671363-26671556
Length
95 bp
Sequences
Splice sites
5' ss Seq
CATGTACTA
5' ss Score
-4.29
3' ss Seq
ATTGCAATTTTTTTTTGTAGTCA
3' ss Score
5.71
Exon sequences
Seq C1 exon
GGGATGAAAGAACAGAAACTTGAAGCCAAAAAGAAGCGTGATGAAGAAATAGAAGCAGAAAGACAAATTCTTGATATAGAAGAAGCAATATACAAACAAGGAGAAAGGAAAAAGGCCATTGAACTTGCAAAGCAATACCAATTTTACCAGACAGAACGAGTGAAAAACTTTCAT
Seq A exon
GTACTACTTGGGTTTTCTTACATTTTATATATATTTAACACCACTGTATATAACTAGACTTCATTTTCTTAAAATATTGCAATTTTTTTTTGTAG
Seq C2 exon
TCAGGACTACTTCTTAGTAGAGTTATGAAAGAACGGGATGCACAGATTGAATTCCAAAAGAGTAAAATAAAATCAGATAAAAAATGGGAGGAACAAGTGAAACTCAATGTTGAAAAAGCTTTTAAAGAAGAACGAGAAAAAGCAGAAAAACAACGCAGAGAAAGAGTGGCTCTTGCTAAAGATCATTTAAAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001090:ENSBTAT00000046952:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.144 A=NA C2=0.169
Domain overlap (PFAM):
C1:
PF138681=Trichoplein=PU(2.6=15.5)
A:
NA
C2:
PF138681=Trichoplein=FE(18.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCATTGAACTTGCAAAGCA
R:
TGAGTTTCACTTGTTCCTCCCA
Band lengths:
167-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]