RnoINT0081792 @ rn6
Intron Retention
Gene
ENSRNOG00000061939 | LOC100911886
Description
collagen alpha-2(XI) chain-like [Source:RGD Symbol;Acc:6490199]
Coordinates
chr20:5321941-5324355:-
Coord C1 exon
chr20:5324176-5324355
Coord A exon
chr20:5322035-5324175
Coord C2 exon
chr20:5321941-5322034
Length
2141 bp
Sequences
Splice sites
5' ss Seq
GCCGTAAGT
5' ss Score
10.11
3' ss Seq
GGTGTCCTGGCTGCTCATGGGCC
3' ss Score
-1.6
Exon sequences
Seq C1 exon
GAGCAGACAGATCTCCAGGTCCCCCCAACAGCTGACAGTTTCCAGGCAGAGGAATATGGGGAGGGAGGCACAGAGCCCCCAGCAGGGTTCTACGATTACACCTATGGCTATGGGGATGATTATCGTGAGGAGACCGAGCTTGGCCCTGCCCTCTCTGCGGAGACAGATCACACAGGAGCC
Seq A exon
GTAAGTGGAAGCAGCTCCTGGTCCATCCTTTGCCATCAGGAGGCGCTACGTGGATTGCTTCCTGTTTGATCCTTGTTGGCTGTGAGCTACTTCCTGTTTGATCCTTGTTGGCTGTGAGCTATTTCCTGTTGGTTTGTCACATTCCCTTCACATGAGATGTCTGTTGCTTGAGAAGATCACTTTCTGCTCTCTCTCTTTCTCCACGTCTTACCCCGTGGCTCCCTGTAGATCCTCTCTCTGTGGCAACTGGACTTTTTTTCAACCCTACCACACTTCCTTTCTTTTTTGGCCACTCCTTATCTAAATCAAGATGGATGTTATGAACCTGTTTGTCAGTAAACAGCTGCCTTGTGTCCGGCGCCCATCTGTCTCACTCATCTCTTGCTCAAAACAACTTTGTGTCCATGGTGATGCCAGAGTTCCTAGCTTCCCGTTTGACATTTTCCAACCTTTGTGGCCACATCTGGTCTGTGTCTCTCTGTCTTCTGAAGCCTTCATGTCCCTTTTGGTGACTGGGTGAGGCTGAACTAAAGGACTTTGTGTTCTGATCTTCTTGATGTCTTGTGTCAGTTTTCTTTAGCAATAAGCCACTCATGGGTACCTCGGATTATCAGAATTAGAAGGATATCCGTTGTGGACATAGATATTTATCTTTGTGTCCTCGCCTTGATGTCAGTGTTTTTCCTGGACCCTGCCTTTCATCGTCTTAATTCTCTTTGCAAGAGTCACTCCTTGTTTGTTTTTCTGGATTTCTTTTCTCTCTTGGTCACGGTAGCCATGTTGTTTTTTTGAAGGTCTACTTCCTGGATCCTTTTTTTTTTCTCTGCTGCTTCCTGTCTCTCTAAGCACTTCCTGTTTGTTCACTATGTTTTCTAGCCATCTTGGCCATGTTTCATTTTTCTTGGCTCTGGCATACGTCTTGCTTCCAAGTGGGTGTCCCTTTGTTTGTCTCCTCAGTGATTTTCCCAGGTCTTCAAACACCCTTGACTGTTGAACTGTTTCCCATTGGCTCTGCTCTGTCCTTCCCCTGCCTTGTTGTTACGGCTGTCCCCTTGCTGCTGCTGCTGCCTAACGCTGTGCCCTGCCCATCCCTTATGGCCACCCTTGCTGTCGCCTTGTGCTGCTTTCTGAATGTTTGGGGTTGAACTGGGGTTTGGGGTTGAACTGATCATGCCTAACTGGCCAAGGTAGGGGTGGAGGGGAGGATTCTGAAGGTCTTCGTTGAGGGGAGTTGGAGTGGTAGCAAATGACCTTCATCCTCTCTGTCTGGCCTAGAGCTCAAGAGTGACAATTGGGGTACAACAGTGGGTAGGGGAGACTGGTCAATTTAAGGGGAGGGGGTTAAGGGAGGAGAAGGGAGGCAAATAACTCTCGCTGGGAAGGGAGCTACGGGATTATGGGAGTTACTTCTAAGGTTTATGTAACTGACCTCAAGAGCTGTATTTTTCAGAAATCCAGTTGGGAAGCTTGAATTTGGGGGATCACTGACAACAGCTTTCTAAATCTCCTTTATGTGTGTGTTTCGCCTACACACATGCACGCATAGGTATATGTTTATATATATATGTACACCACATGCATACTTGATGCCTATGGAGGACATATGATCAGGGTGTTGGATCCTCTACAATTGGAGTTACAGATGGTGTAATCCACCACGCGTGAACAAGTTTGGCCCCTTTCAAAGAACAAGTGCTTTTAAGTGCTAAGCCATTTTTCCAGCCCCTTTGGGCACTTTTAACTGTAAGCACCTTACATTAGATAAACTTCTATACATCAGGGGCACACACATCTGATTTTCTGGAGATAAACCCATGGCTTTTAAAATCAGATTCTCATCCGGTCCCTGCCTTACACCCAAGAAATAAACCTACCCAGTACATGACAAGTGGGGTAAGGATGGAGAAGTAGCTAAGAATTCCTGGGGTCAGAAGGAGCCTTTGGTAGCAGGGTGGGGGCCCCCATAAGAGGAATGCTGACGTTTGGAATCCCTAAAGGGGTGAGGCACTCAGGGCGGCAGCATATGCTCGCTTTGGTGGAGCAGGGTCCAGGGCTTAGAGTTTGGAGGTAGTGGGCAGGCAGTCCTGCGAGTAAGGACGGGCGTTGGGGTGGGGCAATCCTGGTGTCCTGGCTGCTCATGG
Seq C2 exon
GCCCCACTGGGGGTTACATGTGTGTCTCCCTCAGGTTGCCCACGGACCCCGGGGGCTAAAGGGAGAGAAGGGAGAGCCTGCAGTGCTGGAGCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000061939:ENSRNOT00000092329:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal3)
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]