RnoINT0031929 @ rn6
Intron Retention
Gene
ENSRNOG00000010253 | Cd163
Description
CD163 molecule [Source:RGD Symbol;Acc:1310382]
Coordinates
chr4:156765301-156767338:+
Coord C1 exon
chr4:156765301-156765615
Coord A exon
chr4:156765616-156767017
Coord C2 exon
chr4:156767018-156767338
Length
1402 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGT
5' ss Score
10.75
3' ss Seq
GAAGTTGTTCTTTTCCCCAGAGT
3' ss Score
7.69
Exon sequences
Seq C1 exon
CAAGTGGTCAACTCCGCTTGGTAGGTGGAGGTGGTCGCTGCGCTGGGAGAGTAGAGGTCTACCATGAGGGCTCTTGGGGCACCATCTGTGATGACAGCTGGGATCTGACGGATGCCAATGTGGTGTGCAAGCAGCTGGACTGTGGCGTGGCTATTAATGCCACTGGTTCTGCCTACTTTGGGGAAGGGACAGGAGATATCTGGCTAGACGAAATTGACTGCAGTGGAAAAGAGTCTCATATCTGGCAGTGCCATTCACATGGCTGGGGACGCCATAACTGCAGGCACAAGGAAGATGCAGGTGTTGTCTGCTCGG
Seq A exon
GTAAGTTCTGCACATAACTCCTGGTCACAATTGCATTTAAAATAACTAAGGAGCAAATGGTAGTGAATATCAACCTGAAATATTCCCCCAATACTCTGTTCAATCATTTCCAGAGTCAGGAACCCCAAAGAATGTGTTCAACATGTTGGTACAACCTCATGTGTTGGTAGTGTACTGTAAAGAGAAAAATACAAAAACAGGCCTAGATATCATAAATTGTTAACATCAAGGTGCTTTTATAAATATGTGTACAACTGGATATTGGATTCTGTGGCACACTTGATAGTTACAATACAGATATGGTATATTAAGAAGAACAAAAGGAAATAAATCTATATAATATTTACAAAGGAGATAATCACAATATTAAAATAAATCTGAGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGTGAGCACAAGGCCCTGGGTTTGGTCCCCAGCTCTGAAAAAAAGAAAAAAAAATAAAAATAAAAATAAATCTGAACAGCAGATAAATGACTTCTACTTGCCAACTGACCAAAGTTTACCATAAAGAGTCCATTCGTTACCCTTGCTTTGCACATAAAACAAGCTTGGAGACTTTCAGGAACCACAAAAATGTCCCTGGGATTGGGGATTTAGCTCAGTGGTAGAGCACTTGCCTAGCAAGCGCAAGGCCCTGGGTTTGGTCCCCAGCTCCGAAAAAAAGAAAAAAAGAAAAAAAAAGAAAAGAAAAAATGTCCCCAATTGCAGTGTGTTGGAGAAAACAGTAGTATGAGTCACTAGAGGAGTAAAATGGAGCAATTCTATATCAGAAGCAATCGATCATTATTTAATGACCTAAATCTGCTAGCATCTGTGGCAAAGTGGTGTGTCAAACAAGGAAATATTTCATTTAAATGTACATAAAGCATTGGTTTTAGCATCTGTGTCTCATTAAATGTTAAGTATCAAAGACATTGCTCCAAAACCCACATCAACACTCGGTGTACAAGAGGACGCATCCACCTAAGACCTGACTTGACCATAGAATGGAATGTATAGGCACTGAGACGTCACTCCCATATTCCTGAAATACATAGTTTGCATGTCAATTAAGACCAAGCAAGAACAGAATAATACTCCTTGGGTTAAAATTAGTTTAGGAAGAATTGCAGCACTGAAAGGAGTTCAGAGGCTTTGATTGAATCTCATAAGCATCTTCAAGTACTTCAGACGAGATCGATGGGTACAACACTTCAGATTAGAAAGCGGGGTGGTATGTAAAAACTAATACTACATTTCACTAAGATCTAGAACTCTGTTTAAAAGTTACTAACAAATTACTAGGAGTTGACACATTGAATTTGTTACAACCATTTCTAAGTTAGAGAAAAAGGAAATGTTTTCTTCAGAGAAGTTGTTCTTTTCCCCAG
Seq C2 exon
AGTTCATGTCTCTGAGGCTGACCAATGAAGCCCACAGAGTGAACTGTACAGGCCGTCTGGAAGTGTTTTACAATGGTACATGGGGCAGTATTGGCAGCAGCAATATGTCTCCAACCACTGTGGGGGTGGTGTGCCGTCAGCTGGGCTGTGCAGACAATGGAACAGTGAAACCTACATCTTCAGACAAGACACCAACCAGGCCCATGTGGACAGATAGTGTGCAGTGTCCAAAAGGAGTTGACACTTTGTGGCAGTGCCCCTCATCACCTTGGAAACAGAGACAAGCCAGCCCCTCCCAGGAGTCCTGGATTGTCTGTGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010253:ENSRNOT00000068407:10
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=0.157
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=92.5)
A:
NA
C2:
PF0053013=SRCR=WD(100=89.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGTCAACTCCGCTTGGTAG
R:
GGCTTCATTGGTCAGCCTCAG
Band lengths:
344-1746
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]