BtaINT0034304 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019669 | CD163
Description
Bos taurus CD163 molecule (CD163), mRNA. [Source:RefSeq mRNA;Acc:NM_001163413]
Coordinates
chr5:102274297-102275700:+
Coord C1 exon
chr5:102274297-102274617
Coord A exon
chr5:102274618-102275391
Coord C2 exon
chr5:102275392-102275700
Length
774 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
AGATGTCTCTGATTTTTCAGATA
3' ss Score
8.26
Exon sequences
Seq C1 exon
AGTTCATGTCTCTCAGACTCATCAGTGACAGCAGCAGCGAGACCTGTGCAGGGCGCCTGGAAGTTTTTTACAACGGAGCTTGGGGCAGCGTGGGCAAGAGCGACATGTCTGCAACCACGGTGGGGGTGGTATGCAGGCAGCTCGGCTGTACTGACAAAGGGAGTATCAGACCAGCACCTTCAGACAAGGTGGAGAACAGGTACATGTGGGTGGACAATGTCCGGTGTCCTAAGGGACCTGAAACCTTATGGCAGTGCCCATCATCTCCGTGGAAGAGGAGACTGGCCAGCCCCTCAGAGGAGACCTGGATCACATGTGCTG
Seq A exon
GTGAGTATCTGTGCGCCTGTATGACAATCTCATTCTGTTGCTCCACTCTCATCTCCTGATCTAACTCAGTAAGAATGAGTAAGGTTTGGTTAACTCTTATTCTACCTGGATGACGTAACTGATTTTATTTAATTTGGCCTTTGGATATTCAGGATCAGTGACCATTTTCTCAAAGATGATCATACTCTGATGGCCTTCTCAAAAGTTTTATTCAGTTGTGCTTTCTCTGTGAACAAATTAGGATCAGAGAATATATAATTCAGTATTTGACTATTGAGTTGCTCCATTTTTCTTTCAAATAATATCTTGTTACACTCAATGTAAGGAAAGAAGCAGTCAGAAAGATCAATCCTGAATTATTTCCCTGTTCTACACCTTTTTAAACCAGAAGAAGATTTCTATTTATCTGGCAGTTTGAGAGGATTTATACTGAGTTGGCCAAAAAGTTCATTTGTGTATAATTATGGAACAAAAGTTTTGACCAACCTAATACATTTACAATGCTAACTTTATCTCATTGACATTTACTAAGTCACACTAACGTTCTAACGTCCAGGATGAAATATTTAATATACCTAGTTTGTTGGAAGGACATGGACTTCCATGAAAGATGAATGTTGTAAAATTCCAAATGCACATTCAATAAGCAAACAGATTTTTAAAAAATCTTTTAAAACAGATTTTTAAAAAGAGTTTCAAATTTTTCTTTTCTCCTGTGACCTCCTGGGAGCTTTTATCGTCTCAGAAATGATCAAGATGTCTCTGATTTTTCAG
Seq C2 exon
ATAAAATAAGGCTTCAGGAAGGAACCACTAATTGTTCTGGACGCGTGGAGGTCTGGCACGGAGGTTCCTGGGGCACAGTGTGTGATGACTCCTGGGACCTTAACGATGCCCAGGTGGTGTGTCGCCAGCTGGGCTGTGGCTTAGCTCTGGAGGCAGGAAAAGAGGCAGCGTTCGGCCAGGGAACTGGGCCCATATGGCTCAATGAAGTGAAGTGCAAGGGCAATGAGTCCTCCTTGTGGGATTGTCCTGCCAGATCCTGGGGACACAGTGACTGCGGGCACAAGGAGGATGCCTCTGTGAAGTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019669:ENSBTAT00000026215:11
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=90.7)
A:
NA
C2:
PF0053013=SRCR=WD(100=94.2)
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:
TCGGCTGTACTGACAAAGGGA
R:
TCTTTTCCTGCCTCCAGAGCT
Band lengths:
343-1117
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]