RnoINT0031936 @ rn6
Intron Retention
Gene
ENSRNOG00000010253 | Cd163
Description
CD163 molecule [Source:RGD Symbol;Acc:1310382]
Coordinates
chr4:156754461-156756731:+
Coord C1 exon
chr4:156754461-156754781
Coord A exon
chr4:156754782-156756407
Coord C2 exon
chr4:156756408-156756731
Length
1626 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
AACCTTGGTCGCTTCTCTAGATG
3' ss Score
7.31
Exon sequences
Seq C1 exon
AAGGAAGGAAGAAGGAACTGAGACTGGCCGGCGGTGAAAACAACTGTAGTGGGAGAGTGGAGCTCAAGATCCACGAGAAGTGGGGCACAGTGTGCGGTAACGGCTGGAGCATGAACGAGGTGTCCGTGGTTTGCCAGCAGCTAGGATGCCCAACTTTGATTAAAGCCCCGGGATGGGCTAACGCCAGCGCGGGCTCTGGGGACATCTGGATGGACAAGGTTTCTTGCACAGGGAATGAGTCAGCTCTTTGGGACTGCAAACATGAGGGGTGGGGAAAGCACAACTGTACCCATGAACAAGATGCTGGAGTGACCTGCGCAG
Seq A exon
GTAAGGCTTGCCCATGTCAAAGCAAGCCCCAGGCACGTATTTCTAATTCAGTTCACAGTGTCTCTTGGATTCAACATTGCATTGAATTCCGGTGCAGTTATTCACTCATACTAAAACTTCCTGCAAATCATTTAATCTTTCTAAGCTGCTGATAACTCAATAATAAGACATATGCCAAGCTCTCTGCACACTGTGTGGTGTGCAACAATGGCTGAAAATATTAGTTTCTTCAAGGACTCCATCTTTCATTACCATGTGGACTCGGTCATCTTCTCTTCCTCCTCGTTTATTTTATTATTAATCTTTACGTTGACAAACATAGCACTTCTAACAAATTTCAAAACTATAAGAAATCTTTCCAGGCCTTCCCTGTAAATGGAGCTAACATTCAGCTGCAGCTTAGGTGTGGTACCCTGTGCTTTTATTTTCTTACATAATGAAGAGTGAAGTTAAACTTACTTTTTGAAGTTTATAAACCTGAAGGTCCAACCAAAAACTGATAAGAGAAGAGCCTATAGCTACTCAAGGACTTGCTAGTTTCATAGGGATCTGTTCTCTATATCTGTGGGATCCTTCACCCTAACTCCTACTTAGTCTTCAGAGAATCCGCTTCGTGGCACACTAGTCAACAGAAAACTGATGCCGGGCCACCCCACCTACCACTCCACCACTCAGGTCTTGGCTTTGCCATCTTTCTCAATGCTTTCTCAACGCTATGCCCAGTGACTGAGCCTCGGGTCATTGATCTGTGAAGTGGGCTAACAATGATAACATATAGTGTTCAAACTTGTAAGGATTGAATAATACAGCACGTGATGCACTTAAATGTACATTGATTGTGACCTCTTATAATTATCAGTTATTATTACTAATTGCCCATGATGAAAATAAGCCTTGCTAAGTTGTGGTCTTTGGTTGGAGTTTGGAGCTCATGAAATTTAATTTCTTGTTCAACAAAGTGCTTCTAAAATTTTATCCAAATCCACCTTCCCCAGTGTCCCCACATATCAACTAAAGTCTTCTCTTTTTTTCATGTATTTTACTCCTCACAGAACTCATAGCATGAGGAATAAATTTTGCTATAAAAAATGAGAAAATTAAAAAACTCCCTTTTTGCTGAAAATAGTGGTAAATTTCTTGGGAAGATTTTTAAGAACTTGATAGCACATAGTGTTTTAAAGACTGTTGTGTTTATTTAGTCATTTTAATCTTTTCTTATTTTCTAATTTCAAATTCAACATCAATTACTCATTCTTAGAACTCTTTTACTATGGATAGGTTAAAATACAGAATCTAAGCATCTGGTAAATGACTATTTTCTCATTTTCTACAACTTGATTAGAAGGCCAATTTACGTTTTCCTGCTTTTGTTTAACGAATAATGTGTCATATTGATCTTTTCTCTGGTAAAGTATTCTGATCTGTAATACAATTTGCTTGGAAAGCAAATGTAGAGGGAAATCCTTACTGCTCATTGGGCTTTAACATGTTAAAATTCTCTGATACATGGAGAAGGGCCATATCTGAAAGCCAAACACTAACTTTTAATGCCAAGTATCCAGAAAACCCTAAATGAATAGCTGCTTATGAATGACTTTCACTTCCTAACCTTGGTCGCTTCTCTAG
Seq C2 exon
ATGGATCTAATTTGGAGATGAGACTGGTGAACAGCGGGGACAACCGATGCTCAGGAAGAGTAGAAATAAAGTTCCAGGGAAAGTGGGGGACAGTGTGTGACGACAACTTCAGCAAAGATCACGCTTCTGTGATTTGTAAACAACTTGGATGTGGAAGTGCCATCAGTTTCTCTGGCTCAGCTAAATTAGGAGCTGGTTCTGGACAAATCTGGCTTGATGATCTGGCATGCAATGGAAATGAGTCAGCTATCTGGGACTGCAAACACCGGGGATGGGGAAGGCACAACTGTGACCATGCTGAGGACGTCGGTGTGATCTGCTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010253:ENSRNOT00000068407:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=90.7)
A:
NA
C2:
PF0053013=SRCR=WD(100=89.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGGAAAGCACAACTGTACCC
R:
ATGGTCACAGTTGTGCCTTCC
Band lengths:
347-1973
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]