RnoINT0051283 @ rn6
Intron Retention
Gene
ENSRNOG00000039969 | Dsc2
Description
desmocollin 2 [Source:RGD Symbol;Acc:1309426]
Coordinates
chr18:11826706-11829376:-
Coord C1 exon
chr18:11829116-11829376
Coord A exon
chr18:11828478-11829115
Coord C2 exon
chr18:11826706-11828477
Length
638 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGC
5' ss Score
9.4
3' ss Seq
TTGTGTTTTCTCCCCACCAGAAG
3' ss Score
8.93
Exon sequences
Seq C1 exon
TATTCCGCAAATGGCTTCACAGCTCAAACTGCGGGAGCTTCTGGGCAGACAACATTCACAACCTTGGGAGCTGGAGTCAAAAGTACAGGGCAAGAGACCATTGAGATGGTAAAAGGAGGACAGCGCACACTGGACTCCCGCAGGGCGACCGGCTATCACCACCATACCATGGATCCTGGCAGGGGAGGGCATGTGGAGGTGGACAATTACAGATACACCTACTCTGAGTGGCACAATTTCACTCAGCCCCGACTTGGTGAG
Seq A exon
GTACGCGTCTGAGCAGTTCCCCAAACAATGTTGATGTAATTTAAATTTTCCAAATGTAGAGTTTGTACAGACTCCTACTTTTAGTTAAAGATGAATCTATTATTGGAAAGTTAGTATTGTCAATTAATTTGGGTTTAATTATGTTCTGATTTAGGTGATCATTTACTTTCCTGCATTTTTTATTTGGCTTTTAATACTTTTTAGGGAAATAATTTTTGGCATGATTTTGCATCTGAAAATTTTGTTTTTAGCAACCCAATATCTCGCACAAGGCAATAGCAACGTGTACCATCACTTTGCCTGTTTGGAAAGAATGGAGCTCACATCAGTTTGGGTTCAGTTTATCTGGGTGTGGTTTTCCTCTGCCATTATTTTGAAAGACAGGAGCAATGGCCCTTGGGTGAACACTTGGGTGCTCCCTGACATGCAGGACTTTTAGAAGCTAATACTGACTTAACAGCATGATTTTATGATACAGACCAATCGTGTGCATTTTCTACACATAGGAAACCATTAGAGGACACACTCTGATTAAAAATTAAACAGTGAAAGGTAAATCAAAGCACTTCCTTTTCTGTTAGTACGTTTTGGTGCTTAAAATAATAAAAATAAAATATGTTGTGTTTTCTCCCCACCAG
Seq C2 exon
AAGGTGCAGTTTTGCCATGAGGATGACAACCAGAAGCTTGCCCAAGACTATGTCCTCACATACAACTATGAGGGAAAAGGCTCGGCTGCTGGCTCTGTGGGTTGCTGTAGCGACCTACAGGAAGAAGACGGGCTTGAGTTTTTGGACCATCTGGAGCCTAAATTTAGGACATTAGCAGAAGTATGTGCAAAGAGGTGAACGACTTCTAACAGGATAACGAAAACTAATGGATTTACTGCCTTGTCCTCCCTGCTTTTAACTGTAAACCAGGAGTTTTCAAAAACAGAAGATGTTATATTTGGGGCTCCCTCCGCCATCTACAGAGTCTCCATGGATATACACATTTACAGAGAAACGTTGTATATTAGTGCTCGGAAACCATTGCTCTCGAGTTTCAGTCACTTCTCTTTTACGGGTGTCCTCTCACATGGAAACTTAAGGAATTCTCATTACTGTTTACATTGGGTGTAATGACAGCAGCCAACTTAGAGTGCAATGACGTTGAATGGATTTCAGTCCGTTTCTAGACTATTGACTGTAACCCAATTGGAGACTGTAGACACCATCATCTCCAGTTAACGAATTAACTGATTGTTTGTATGGTGCTTGGAAACAGTTGTTTTCCTCAACATTCTAAACTGTGTATACTGTGTCTTACTTTTGTTATAGTCTTGTAACATGGCCTGGCTTTGTAGTGCAAAGGTAGACGGCCAGGCAGCCATCGAATGTGCTGAAGTTCTAATCCAGTGGGTTTTAGCTTCTGTTCTATGTAAAAGCCTGCACTGAATCTCAGTCTCTTTTGTACTGACTTTGTCAGTTAAATTTAGATTTCAAAACTCCTGTTTTTTCCTCCTAAAATTTTTGGTCTGTGAATACCAAATGGTCTACCCTCCCATCCTCTCTTCATTTTTAATTTTGTTTTTGTTTTCTTTCCTGTTGACTTTGAAAGGTCTACTTGGGTTGAAGAAATCCAAGATGTCCCTATAAGTTGTCTCATAAAATAGTTTTTCTCTGGTGTGTATGCATGTGCCTTGTTAGTTTTCTTAAGCTCAATGTAACAGCAACATTATTGTTTTGGATTTTTGGTAATTGCTTCATTTCTGTCCTTAGTGAAGAACTTTCAGTTTTTCCAATGAAACTATAGGACTCTTTCATGATCTTTTAGAAGCAACGTTCTGTGTAACAGAAGCAATAGTGTACTTAGAAGTAGGTTGTGTCAATCTGATGTAGAATAGCATAGTTACAATTTCTGTTCTTAATTCAAGGACACTGGAAGTAGGAAGTAGTGATAAGAGTTTGAAGTAAGCTTCTCAGCAGAATAATCTCAGACAATCTCTAGGACAATGACTTCACTTACTTTTTAGATGATATGGTTAGTCATAATTACATGGTTGTAAAATTATTTTTAGAAAGTTTGTAATTATAGTTATTTTATGAAATATAGAAATGGGCCAAACAATTTAATCTTTTTAAGGAATTTACACATGAGTAAACTTCATAGCCAGCTACGTTCTAGAACACAGGTCATGTTTCCTTCAGTCAGTGAGCTCAGCACTTTGACTGGATGGATGGAGATTCTAGGATGGACATTCTAGGTGCAGTTCTCATGTGTGCGATTGTTCATTGTGTGGAACAATGTCTTGAATTCACCGAGTTGGCTTATAACAATTGTGTCCAGAACAAACATTGGGGAAATTTTTGAACACCAACTATGTATGCAGTGGAGTCATTATTTGTGTCAGAGACATTTTTAATAAATTATGTACAAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000039969:ENSRNOT00000061417:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.429 A=NA C2=0.077
Domain overlap (PFAM):
C1:
PF0104912=Cadherin_C=PU(46.3=65.5)
A:
NA
C2:
PF0104912=Cadherin_C=PD(52.0=97.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAATTTCACTCAGCCCCGAC
R:
AGACTCTGTAGATGGCGGAGG
Band lengths:
357-995
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]