BtaINT0099707 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001764 | NCAN
Description
Bos taurus neurocan (NCAN), mRNA. [Source:RefSeq mRNA;Acc:NM_001193082]
Coordinates
chr7:3969151-3969563:-
Coord C1 exon
chr7:3969389-3969563
Coord A exon
chr7:3969279-3969388
Coord C2 exon
chr7:3969151-3969278
Length
110 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
CCCCCACTTTGTCTTGTCAGGTA
3' ss Score
10.28
Exon sequences
Seq C1 exon
GTGTTGTGTTCCACTACCGAGCAGCCCTGGATCGCTACTCTCTAACTTTTGCTGAGGCTCAGGAGGCCTGTCTTCTCAACTCAGCCACCATTGCAGCCCCGCGGCACCTGCAGGCTGCCTTTGAGGACGGCTTTGACAACTGCGATGCCGGGTGGCTTTCTGACCGCACTGTTCG
Seq A exon
GTGAGTGGGTACACAGGGTAGGGAGACGGAGAGCTAGCCCCTGGAGAAAGAGGTTCCTTGGGAGCCCCCGGAGCACAAATCTGAGAGAGGCCCCCACTTTGTCTTGTCAG
Seq C2 exon
GTATCCTATCACCCAGTCCCGTCCTGGTTGCTATGGTGACCGTAGCAGCCTTCCGGGGGTGAGGAACTATGGGAGGCGAGACCCACGGGAACTCTACGATGTGTATTGCTTTGCCCGTGAGCTGGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001764:ENSBTAT00000002312:4
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:
PF0019312=Xlink=PU(60.4=98.3)
A:
NA
C2:
PF0019312=Xlink=PD(38.5=84.1),PF0019312=Xlink=PU(0.1=0.0)
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:
GTTGTGTTCCACTACCGAGCA
R:
CTCGCCTCCCATAGTTCCTCA
Band lengths:
253-363
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]