BtaINT0034314 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019669 | CD163
Description
Bos taurus CD163 molecule (CD163), mRNA. [Source:RefSeq mRNA;Acc:NM_001163413]
Coordinates
chr5:102268042-102269703:+
Coord C1 exon
chr5:102268042-102268356
Coord A exon
chr5:102268357-102269610
Coord C2 exon
chr5:102269611-102269703
Length
1254 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
ATAATGTTTGGTGCTTGCAGGAA
3' ss Score
7.53
Exon sequences
Seq C1 exon
GATACACAGAAGTTCGCTTGGTGGGTGGCAATACCCCATGTGAAGGAAGAGTGGAGGTCAAGATTCTTGGGACCTGGGGACCTCTCTGCAACTCTCACTGGGACATGGAAGATGCTCATGTTTTGTGCCAGCAGCTTAAATGTGGAGTTGCTGCTTCTATCCCAGGAAGAGCACCTTTTGGGAAAGGAAGTGGGCAGCCCTGGAGACACATGTTCCACTGCACTGGGACAGAACAGCACATGGGTGATTGTCCTGTAACTGCTCTGGGTGCATCGCTGTGTCCTGAAGGGCAAGTGGCCTCTGTAATCTGCTCAG
Seq A exon
GTAAGAGAATAAAGGGCAGTCAACAAGGAGCCTCTGCCATGGTGGTGTGCCTTAAGAGTGGGTATTAGTGGGGCAGGGGCGGGGGGCAGGGAAGGAGAGTGGGATGAACTGAGAGAGCAGCATTGATGTATATACACTACCATGTGTAAAAGACATAGCTAGTGGGAAGATACTGTTTAACACAGAGAGTTCGGTTCGTTGCTCTGTGATGACCTAGAGGGGTGGGATGGGGGTTGTGGGAGGGAGACTCAAGAGGGAGGGGATATATGTATACTTACAGCTGATTCATGTTGTTGTATAGCAGAAACTAACACAACATTAAAAAACCAATTATACTCCAATAAAAATTATCCTATGATAAACCAAAGAGTATTAAAAAAGAATATATATATATGTATGTATGTATATATGTATAACCGAATCACTTTGCTGAATTAACAGGAATTAACAACATTGTTAATCAACTATACTTCCAAAAAGGAGTGGGTGTACCTATAGCAAAGAATGGGAGTAAAAGCAAATGATCCTCTTTGAGACATTATGAGAGGTGTACCAGAATATTAACTTCATTTGTCTTTTTAGTGGAAAGTAAACTTGATTTTCATGGACCTCATAGTTACATAGAGCTTATGTGTGTGGGTCAGTCACTCAGTCATGTCTGACTCTTTGCATCTCCATGGACTCTGCCCACCAGGCTCCTTTGTCCATGAGAATCTCCAGACAAGAATACTGGAGTGGGTAGCCATTCCCTTCTCCAGAGGATTTTCCTGATCCAGGGATTGAACCCAGGTCTCCTGCCTTGCAGGCAGATTCATTACCATGTGAGCCATCAGGGAAGCCCATTTAGGACTTACCATGTAACTTCTCAGGCTTCCCAGGTGCTGCCAGTGGTGAAGAACCCAGCTGCCATTGCAGGAGACATAAGAGACACAGGTTTTCCCTGGGTCAGGGAGATCCCCTGGAGGGAGGCATGGCAATCCACTCCACTGTTCTTGCCTGGAGAACCCCATGGATGAGGAGCCTAGTGGGCACAGGCCATGGGGTCGCAGAGAGTCACTCATGACTAAAGTAACTTAGCACAGATACACAGGTGCCTTCTCAGAGGATCTGATTCATTCTTAGCCTGGTTGACCCAGACACCTTTCTCTAAAGCTATGTTTGTCCTGAGTTCATCTATCTAGTATACCAGTTGACCTCCTCTCTTCATTCCATCCTTTTGTATCTCTTGTGATGGATAATGTTTGGTGCTTGCAG
Seq C2 exon
GAAATCGGAGTCAGACACTATATCCATGCAATTCATCATCTTCAGATCCGGAAAGCTCCGTTGTTTTGGAAGAGAATGGTGTTCCTTGCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019669:ENSBTAT00000026215:8
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=0.031
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=92.5)
A:
NA
C2:
NO
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:
GGTGGCAATACCCCATGTGAA
R:
GGAGCTTTCCGGATCTGAAGA
Band lengths:
351-1605
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]