BtaINT0034307 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019669 | CD163
Description
Bos taurus CD163 molecule (CD163), mRNA. [Source:RefSeq mRNA;Acc:NM_001163413]
Coordinates
chr5:102276430-102278444:+
Coord C1 exon
chr5:102276430-102276537
Coord A exon
chr5:102276538-102278268
Coord C2 exon
chr5:102278269-102278444
Length
1731 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGA
5' ss Score
5.06
3' ss Seq
CCTATGACCTCTTTTGTCAGTTT
3' ss Score
5.85
Exon sequences
Seq C1 exon
GTCACTCATCCACTGTTGCACTTGGAATCCTTGGGGTCATTCTGTTGGCCTTTCTCATCGCAACCCTCTTGTGGATTCAGAGGCGAAGACAGAGACAGCGGCTTGCAG
Seq A exon
GTCTGAGCCAAATTATCGTGTCTCTAACATTTCTATGGCATAAAAAATTTCTTGGAATAATACAACAACAACAAAAATTAGATTCAAGTATCAAATGGCCACAAAGAGGAAACCTAGAAGAGATTTAAGCAGTTTCCCCAAAAGAAGAAACAAAAATTCAGAGAAGAAAAGGGGTACTGCTTGTATTGATGATTATTATAATGTAGCTATGGGCTTCCCTGGTGGCTCAGTGGTAAAGAATCCACCTGCCAATGCAGGAGATGAGGGTTCAGGCCCTGGGTCAGGAAGATCCCCTGGAGAGGGAAACGCAATCCACTCCAATATTCTTGCCTGGAAAATTCAATGGACAGAGGAGCCTAGCAGGCTATAGTCCGTGGAGTTGCAAGAGTCAGGTACAACCTAGCAACTAAAAACAACAGCAAATAGTCTATCTACATCTTTAATTGAATGTTACAGAATCGATCATTTAGAATGAGTATGCTTTTGTGATGCATGATGAATCCTTTATTGTCCAAACATTTGTTTGCTCTTACTCTATGCTGCTAAGTCACTTTAGTCCTGTCCGACTCTGTTCGACCCCATAGACGGCAGCCCAACAGGCTTCCCCGTCCCTGGGATTCTCCAGACAAGATCACTGGAGTGGGTTGCCATTTCCTTCCCCAATGCATGAAAGTGAAAAGTGAAAAGTGAAGTCACTCAGTCGTGTCCGACCCTCAGCGACCCCATGGACTGAAGCCCTCCAGGCTCCTCCATCCATGGGATTTTCCAGGCAAGAGTACTGGAGTGGGGCGCCATTGCCTTCTCCGATACTTATTACTAAATTTACTGTTCTGTTAAGCAACACGCTAAGTTCTGAAGATGACTCAGACATGGATATTCCAATGTTCTTGTCTTTGTGTAATTTCCAGTCTAGCGAAAGAGAAATATATGTAAACAAATAAGTTGCAATGTATTATTATATAGTAACATGAATAAAGAACAAAGGGGGCCCAGAAAATACATTAATTAACTGAAAAAGGAGTATTGGAGGCTTCTAGAAGATTTTGAGACAAATTTTGAAGATATAGAGCAAAGAACTTAGTGAGTGCATTTCAGGGAGAGAAAAAAATATTTATGAGTGTAGAGAAGCTTAAAGATGGCACATTTGGTGTTTTTGTCGGGGTAAGTAAAACGTGAGTTCAAAGACAGAAGTTCCTGATGAGGCTGAAGAAAGGGGAAGAAACAAGTAGTGAAGTTCTGTATTTTCCAGTAAGAAGATTAATAGTCATTAAAGAGTATGGTATAGTGGACAGAGTAGTCAGGCAGGCTCTTAGAAAGTTCTGTTTGGACATCTGAGGGGCTGAAAGAGAACTACATTATTGACAAAGATAGGATTTTGAAATAGTTGAGATGAAAGATGAAAAAGACTTTATAGTGAGAATGAGCAGGAAAGGATAAGTTTTATAAAGATTTTAGATGAATCTCCAGTGAATTATGGAAGAATGCTGGCTGCCTTGGGAGAAGAAACTGGGTAGTAATAAGATGGCAGTGGGATACCTGGTTTAGTTTCATTGCTATTGCATTTGTGTTTGTGGCTTCACAAGGGTGAAGCTTGGTAGTAGAATAGAATGGAAACAGGACAAGGGCTTAGGTGATGATTGGGTGTGCTTGCACTGCTGAGAAAAAGCACACAGAGGGAGGGAAAGTTTTATTATGCCCCCCTGACTCCTAACCTATGACCTCTTTTGTCAG
Seq C2 exon
TTTCCTCAAGAGGAGAGAACTCTGTCCACGAAATTCAATACCGGGAGATGAATTCTTGCCTAAAAGCAGATGATCTGGACCTATATAATTCCTCAGGTCTGTGGGTTCTTAGAGGGTCCATAGCCCTGGGGTTCAGACTGGTAACTGCAGCTGAGGCTGAGAGGCATTCTACTTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019669:ENSBTAT00000026215:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.027 A=NA C2=0.034
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCACTCATCCACTGTTGCACT
R:
AGAATGCCTCTCAGCCTCAGC
Band lengths:
278-2009
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]