RnoINT0081688 @ rn6
Intron Retention
Gene
ENSRNOG00000030522 | LOC100910725
Description
C-type lectin domain family 2 member D-related protein-like [Source:RGD Symbol;Acc:6497009]
Coordinates
chr4:162155665-162159059:+
Coord C1 exon
chr4:162155665-162155883
Coord A exon
chr4:162155884-162158879
Coord C2 exon
chr4:162158880-162159059
Length
2996 bp
Sequences
Splice sites
5' ss Seq
ACCGTATGT
5' ss Score
6.73
3' ss Seq
ATGTCTCCCTTGAATCCTAGGGA
3' ss Score
7.57
Exon sequences
Seq C1 exon
GACAGCATGCTTTTCCGTCATTGATCCCGCCCCCTATTTTCATTTCTGGAGCCTGTGGTCAGATCTAGGTAGGAGCCCAATCACAGGTCAGCTGGTTTAAAACTCCACCCACAGGATCTCAGGGTGTTCCAATGTTTTCATTCATCGGAGACACATTGCTTCAGCAAGAAGAAGGTGCAGATCCTCCCTCCCCAGATTGCTTGGAAACAGGAGAAAACC
Seq A exon
GTATGTATTTAATGAAATGTAAACTAAACTAAAGGGAGAGAAGGGAGTTTCATGAAAGGAGCTGAAGCTCACTCCTGTTAGCCTGCCACCTTGGGTTTTATAGATGGGTGGTGGCTGGGGTGGGTGGGTGGGGAGCTCTGTAGGGGGTGTATTTTTCCTATGTATTTTTCTAGTGTGGCGTTTGTTACTTAAATGTGTTTGAAGGAAGTGCAACCAACAGCAAACTTGTTGTATCCTCTTCCCAGGCATCTGGAATTTGCACTCCACTTTCAGAAAGTGCCATAAATTTGCACCCTAGAAGCAGTGAGGCTGGGATTTCCTGTGATCACTCAGTGTAATTAAAGTGCAGCAGCCATGAGGGCAGCGGCAGGTGTTGTAAAGTGTCAAGTTTGAAATTTTCATCACCAACCTCCCACCCCCAACCCCCTCCTGCACCCCTGGCCCCATGCACCCTGTCCTGGCACAGCACTCTTACTGATTCCCTCAGATTTTCCTTGGAGAATTTCCCTTTCAGAATGACCGAGTTTTCCACTGGCTTGCTGCCCTGGCCACATACTTGATTCTGAGTTCCCTACTTCTGCTCAGGAAAATGGCTCTTTTAAGTAGGTTTCCGGATTCTTCCAGGATTCACTGGATGACCTTGGATGGGCTCAGTCTCATCCTGGCACCCAGCCCACACCTCAAGTGCCCTGCCTCCAAACCCCACCTCCCATTTCAGACTCACACAGTAGGGGGGTATTCCTCCTTCCCCAAACTTCCAAGCTGTCAGAAATTCTCCCTCTTCCTTAGGACAATGGTGTGTGGTATAGTCTTTCTGGCCTTAAATCACTCTTGTGGCCTCAGCGAACAATCTTGGTCCTAGTGTTAGATATTGTATCCCAGGTTTTTTTCAGTAGGGTGGGGGTGTGAGATTTATCAAACCTGCAAAGCCATCTACAGTTTATGTTCATAATAAATAATGAGAAAAGAACATTGAAGATTTCTACTTAAAACTGCATCCTCTCCATTTTGAAAAAAAAATTATATTTTATTCTTTAACTCTCTTCCCCTTTAACTTAAAAACACATATATTTTATGTGTGCTTTTCCTGTATGTCTGTGTGCACTGCGGGCATGCCTCGTCATGCATGCACAGAGGTCAGAAGAAAGTGTTGAATCTACTGGAAGCAGACTTCAACAGTTGTGAGCCACCCTGTGGGTGCTGGGAATGAACCAAGTCCTCTCTCTACAAGGGTAGCAAGTGCTCTCTACTGCTGAGACATGATCCACCCCCAACTTAATATTTTTGATTAGGAATAAAATAGCGAATTTCTTGAAGCACAGAGTTCCCAATTATTTCTAGATCAAGGGCCTAGTGTCAGCCCTANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCAATGTTTTCATTCATCGGAGACACATTGCTTCAGCAAGAAGAAGGTGCAGATCCTCCCTCCCCAGATTGCTTGGAAACAGGAGAAAACCGTATGTATTTAATGAAATGTAAACTAAACTAAAGGGAGAGAAGGGAGTTTCATGAAAGGAGCTGAAGCTCACTCCTGTTAGCCTGCCACCTTGGGTTTTATAGATGGGTGGTGGCTGGGGTGGGTGGGTGGGGAGCTCTGTAGGGGGTGTATTTTTCCTATGTATTTTTCTAGTGTGGCGTTTGTTACTTAAATGTGTTTGAAGGAAGTGCAACCAACAGCAAACTTGTTGTATCCTCTTCCCAGGCATCTGGAATTTGCACTCCACTTTCAGAAAGTGCCATAAATTTGCACCCTAGAAGCAGTGAGGCTGGGATTTCCTGTGATCACTCAGTGTAATTAAAGTGCAGCAGCCATGAGGGCAGCGGCAGGTGTTGTAAAGTGTCAAGTTTGAAATTTTCATCACCAACCTCCCACCCCCAACCCCCTCCTGCACCCCTGGCCCCATGCACCCTGTCCTGGCACAGCACTCTTACTGATTCCCTCAGATTTTCCTTGGAGAATTTCCCTTTCAGAATGACCGAGTTTTCCACTGGCTTGCTGCCCTGGCCACATACTTGATTCTGAGTTCCCTACTTCTGCTCAGGAAAATGGCTCTTTTAAGTAGGTTTCCGGATTCTTCCAGGATTCACTGGATGACCTTGGATGGGCTCAGTCTCATCCTGGCACCCAGCCCACACCTCAAGTGCCCTGCCTCCAAACCCCACCTCCCATTTCAGACTCACACAGTAGGGGGGTATTCCTCCTTCCCCAAACTTCCAAGCTGTCAGAAATTCTCCCTCTTCCTTAGGACAATGGTGTGTGGTATAGTCTTTCTGGCCTTAAATCACTCTTGTGGCCTCAGCGAACAATCTTGGTCCTAGTGTTAGATATTGTATCCCAGGTTTTTTTCAGTAGGGTGGGGGTGTGAGATTTATCAAACCTGCAAAGCCATCTACAGTTTATGTTCATAATAAATAATGAGAAAAGAACATTGAAGATTTCTACTTAAAACTGCATCCTCTCCATTTTGAAAAAAAAATTATATTTTATTCTTTAACTCTCTTCCCCTTTAACTTAAAAACACATATATTTTATGTGTGCTTTTCCTGTATGTCTGTGTGCACTGCGGGCATGCCTCGTCATGCATGCACAGAGGTCAGAAGAAAGTGTTGAATCTACTGGAAGCAGACTTCAACAGTTGTGAGCCACCCTGTGGGTGCTGGGAATGAACCAAGTCCTCTCTCTACAAGGGTAGCAAGTGCTCTCTACTGCTGAGACATGATCCACCCCCAACTTAATATTTTTGATTAGGAATAAAATAGCGAATTTCTTGAAGCACAGAGTTCCCAATTATTTCTAGATCAAGGGCCTAGTGTCAGCCCTAGGATCTCAGGCCAAGCTCCTGTAGACTGGACAGCCTACCTGCTGTGATGGTTGGAAACACTGTTCTGGGAGGTAGGGTACAAGCTGAAGGGGAGGGAGATCTAACCATGTCTCCCTTGAATCCTAG
Seq C2 exon
GGACGTAATCAATGCCGTCCAGTGCACACCTACAGGATCCTCCCCCACACCTCTCCAGGACCCTTACACAGGATGAAGAACAGACCTCCTTGAGGCAGAGTAGCAGCTGTGGTCCGTCTACTACCTCTGCCTCTGCCTCTGAGTCATTGTCAGGTTCTACCAAGTCAAGAATTTCTCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000030522:ENSRNOT00000043078:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.684
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]