BtaINT0034313 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019669 | CD163
Description
Bos taurus CD163 molecule (CD163), mRNA. [Source:RefSeq mRNA;Acc:NM_001163413]
Coordinates
chr5:102267630-102268356:+
Coord C1 exon
chr5:102267630-102267944
Coord A exon
chr5:102267945-102268041
Coord C2 exon
chr5:102268042-102268356
Length
97 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGA
5' ss Score
5.26
3' ss Seq
AAAGCCCTGTCTCCTTCCAGGAT
3' ss Score
9.82
Exon sequences
Seq C1 exon
CCCACAGGGAACCCAGACTAGTTGGAGGGGACATTCCTTGCTCCGGTCGTGTTGAAGTGAAACATGGCGACACTTGGGGCACCATCTGTGATTCTGACTTCTCTCTGGAATCGGCCAGCGTGCTATGCAGGGAATTAGAGTGCGGCAGCGTTGTCTCCATCCTGGGGGGAGCTCACTTTGGAGAAGGAAATGGACAGATCTGGGCTGAAGAATTCCAGTGTGAAGGCAACGAGTCCCATCTTTCACTCTGCCCCGTTGCACCCCGCCTGGATGGGACGTGTAGCCACAGCAAGGACATTGGAGTAGTCTGCTCAA
Seq A exon
GTGAGACCCAGACAACATGTTCATTTTGTCCCCATATTGTGAGGAGGGTAGGGTTAGGTAGTCACAGACATCTTATTAAAGCCCTGTCTCCTTCCAG
Seq C2 exon
GATACACAGAAGTTCGCTTGGTGGGTGGCAATACCCCATGTGAAGGAAGAGTGGAGGTCAAGATTCTTGGGACCTGGGGACCTCTCTGCAACTCTCACTGGGACATGGAAGATGCTCATGTTTTGTGCCAGCAGCTTAAATGTGGAGTTGCTGCTTCTATCCCAGGAAGAGCACCTTTTGGGAAAGGAAGTGGGCAGCCCTGGAGACACATGTTCCACTGCACTGGGACAGAACAGCACATGGGTGATTGTCCTGTAACTGCTCTGGGTGCATCGCTGTGTCCTGAAGGGCAAGTGGCCTCTGTAATCTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019669:ENSBTAT00000026215:7
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=92.5)
A:
NA
C2:
PF0053013=SRCR=WD(100=92.5)
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:
ATCTTTCACTCTGCCCCGTTG
R:
TGTCCCAGTGAGAGTTGCAGA
Band lengths:
183-280
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]