BtaINT0079960 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003449 | KCP
Description
kielin/chordin-like protein [Source:HGNC Symbol;Acc:HGNC:17585]
Coordinates
chr4:93658288-93658858:-
Coord C1 exon
chr4:93658716-93658858
Coord A exon
chr4:93658461-93658715
Coord C2 exon
chr4:93658288-93658460
Length
255 bp
Sequences
Splice sites
5' ss Seq
CCCGTGAGT
5' ss Score
8.4
3' ss Seq
GTGTGCGGGGCGGAGGCCAGGAC
3' ss Score
-3.9
Exon sequences
Seq C1 exon
CCCCCGCCCCGTCGTGCGCGCACCAGGGCCGGCAGGTGGCCTCCGGGGAGCGCTGGGACGTGGACGCCTGCACCAACTGCTCCTGCATGGCAGGCACCGTGCGCTGCCAGAGCCAGCGCTGCCCGCCGCTCTCCTGTGGGCCC
Seq A exon
GTGAGTGCCAGGGTCTGGGGCGGTGGGATGGGTGAGCACGTGGCGCGGCCCACCTGGAGCACCGGGGAAGTAGGAGACAGGGCTCGCCCGGGTCGTGCAGTGTCTGACATGGCCACGAGGTGGCGTCCTGACCTCCTCCAGCAGGAGCTCGGGAGCCAGGGAGCCTCCCCGGAGATGCTCGGTCCTCCGGGGAGGCTCAGCGCGGGGCCCGGCCGGGAGCGCGGCGTGTCTGACCGTGTGCGGGGCGGAGGCCAG
Seq C2 exon
GACGAGGCCCCCGCCCTGAGTCCCGGCAGCTGCTGTCCTCGCTGCCTGCCCCGGCCCGCTTCCTGCATGGCCTTCGGAGACCCTCATTACCGCACCTTCGACGGCCGCCTGCTGCACTTCCAGGGCAGCTGTAGCTACGTGCTGGCCAAGGACTGCCGTGGCGGGGACTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003449:ENSBTAT00000033567:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009313=VWC=PU(72.4=87.5)
A:
NA
C2:
PF0009313=VWC=PD(24.1=24.1),PF0009420=VWD=PU(24.0=62.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGGACGTGGACGCCTG
R:
AGTCCTTGGCCAGCACGTAG
Band lengths:
245-500
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]