BtaINT0034305 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019669 | CD163
Description
Bos taurus CD163 molecule (CD163), mRNA. [Source:RefSeq mRNA;Acc:NM_001163413]
Coordinates
chr5:102275392-102276225:+
Coord C1 exon
chr5:102275392-102275700
Coord A exon
chr5:102275701-102276189
Coord C2 exon
chr5:102276190-102276225
Length
489 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TCTCCTCTTTTCTCCTACAGAAA
3' ss Score
12.59
Exon sequences
Seq C1 exon
ATAAAATAAGGCTTCAGGAAGGAACCACTAATTGTTCTGGACGCGTGGAGGTCTGGCACGGAGGTTCCTGGGGCACAGTGTGTGATGACTCCTGGGACCTTAACGATGCCCAGGTGGTGTGTCGCCAGCTGGGCTGTGGCTTAGCTCTGGAGGCAGGAAAAGAGGCAGCGTTCGGCCAGGGAACTGGGCCCATATGGCTCAATGAAGTGAAGTGCAAGGGCAATGAGTCCTCCTTGTGGGATTGTCCTGCCAGATCCTGGGGACACAGTGACTGCGGGCACAAGGAGGATGCCTCTGTGAAGTGCTCAG
Seq A exon
GTGAGCGCAAGGGGTCTGGAATCTCCGGCGGCCGCAATGAGGAGAGGGTGGGCGGGGAAGTGCATTGTGTAAGGACCGGAAGTACCAACACAGCGACCTGGTGGGGAGAGAATCCTTCGTGTTGTTATACATTGGTCTTCAGACGGTAAAGAATCCGCCTTCAATGTCGGACACCTGGATTCTATCCCCGGGTTGGGAAGGGCAACCCACTCCAGTATTCCTGCCTGGAGAATTCCTTGGACAGAGGAACCTGGCGGTCTACAGTCCGTGGGGTCGTAGAGAGTCAGACACGCCTGAGCGACTTTCACTGAGGAAAAGCATTTAGCTTACATGTGTCCGTGTGCAGAGGGAGGAAAAACTAGGGGTCTCTAATTTTGGGTGGGAAGAAGTAGTTTACTTGATTGAGAGGCTAAATCCCCAGACAGGAAACAGATGTAACTGTTCCGTATGTAACTGCCAGAATTGAGTCTCTCCTCTTTTCTCCTACAG
Seq C2 exon
AAATTGCAGAGAGCAAAGGATCAGTAAAGGCCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019669:ENSBTAT00000026215:12
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:
PF0053013=SRCR=WD(100=94.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAATAAGGCTTCAGGAAGGAACCA
R:
CTGCGGCCTTTACTGATCCTT
Band lengths:
342-831
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]