RnoINT0032861 @ rn6
Intron Retention
Gene
ENSRNOG00000020151 | Cdh1
Description
cadherin 1 [Source:RGD Symbol;Acc:69279]
Coordinates
chr19:38829783-38832368:+
Coord C1 exon
chr19:38829783-38829928
Coord A exon
chr19:38829929-38832143
Coord C2 exon
chr19:38832144-38832368
Length
2215 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGG
5' ss Score
6.63
3' ss Seq
CCCTTTCTGTTTTCTCTTAGGTT
3' ss Score
12.53
Exon sequences
Seq C1 exon
GTATCGGATTTGGAGGGACACTGCCAATTGGCTGGAGATTAACCCAGAGACTGGGGTCATTTCCACTCGGGCTGAGATGGACAGAGAAGATTCGGAGCATGTGAAGAACAGCACGTATACAGCTCTCATCATTGCCACAGATGATG
Seq A exon
GTATGGACACCGTGTAGTCTGATCTGCATCGTGGCTTGGGCTACCCTCCAGCTTGCTTGCCCCTTTGCCTCTGCCTTATTTGGGGTGGAGTGGGGTAGGGCAGGATAGGGTAGGGTGGGATTTCATTCCTTTTTTTTTTTTTATAGATTTATTTATTTATTATATATGAATACTCTGTAGCTGCCTTCAGTCACACCAGAAAAGGGCATCAGATCATTACAGATGGTTGCAAGCCACCATGTGGTTGCTGGGATTTGAACTCAGGACCTCTGGAAGAGCTGTCAGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCCCCTTTTCTTTTATTATAACAAACAATCATAACATACACAGATTTTGGTAACAAAATTCCAAACTCTAGATTATCCTTCCCTTTTGTCCCTTTCTGTACTTGAAACTCACTCCTTCTTACAGAAACTTGGTCTGTGGTTATGCATTTATTACTTAATTCTTTTTTTTTTTTTTTTAAGGTTTATTTATTTATTATGCATATAACATCCTGCCTGCATACATACCTGCAGGCCAGAAGATCTCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCAGGACCTCTGGAAGAGCAGACAGTGCTCTTAACCTCTGAGCCATTTCTCCAGCCCCTACTTAATTCTTATAATCTTCAACTTTTTCATTTCTTTTTGAATTTTATGTGTCTCTTAGGGTTTCATTTCTGTGAAGAGACACCATGACCAAGGCAATTCTTATTTTTTTCTTAAAGATTTATTTATTTATTATATATATATTGAGTACACTGTAGCTGTCTTCAGACACACCAGAAGAGGGCATCGGATCCCATTACAGATGGTTGTGAGCCACCATGTAGTTGCTGGGAATTGAACTCAGGACCCTTGGAAGAGCAGTCAGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCGCAAGGCACCTCTTATAAAGGAAAACATTTATTTGGGGCTGGTTAAGTTTCAGAGATTTAGTGCATTCTTGTCGTGACAGGAAGCCTAGAGGCATGCAGACAGACGTGGTGCTACAGAAGGAGCTGACCCAGAGTTCTACATCTTAATGCAAGGGCAGCCAGGAAGAGACCATCTAATGCAGGCAGACAGGAAGAGGCTCTGGTTATACACTGGGTGGAGCTTAGGCATAGGAGATCTCAAAGCTCACCCCAACAGTGACACAGTTCCTCCAATAAGATCACACCTACCTGAGTAAGGCCACACCTCCTAATAGAGCCTTCCTTTGTAGGCCAAGCATTCAAACGCATGAGTCTATTGGGGCCAAACCTATCCAAACTACCACAATATGTGTGAATTTAGCCTGCATGTATGCCTGCGTTCCTGGTGTCCATAGAGGATGTTCCCCTGGATCTGGAGTTACAGATAGTTATGAGCTGCTATGTGATGAAAACTGAACGTAGGTCTTCTGTAAGACTAAGCATTCTTAGTCACTGAGCCATCTATTCAGACCCTTTTCCTTTTATGGAAATGGGACCACAGTGTTAAGCATAGTCGTGTGTTCTCCACCACGTGGATACCCCAAGATTTTTTTGGAAAAAAAAATTTTTTTTTGAGACATGGTTTCCTGTATCACCCAGGCTAGTTTTGAACTCACCATGTAGCCACGAAAGGCCTTAAAATTGAGGTGACCCTCCCTTCCCTCATGCGTGGTTCTAAGATTCCAAAGAAAGTCTACCTCACTCTGCTTTTCCTTACCTTTTTTTTCCCTTTCTTTTCTTTTTTTCAGAGCTGGGGACCAAACCCAGGGCCTTGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTCCCCTTTTCCTTACTTTCTAATAAGATCTGCGAGAGCCAGGCTTTGGTAGGAGGTTGAGGCAGGGTGATTGTAATTCCAAAGGCAGCATGCTAAGACTTTGTCTCAAAAAACAAACAACAACAACAAAACAGTACCCCCCACCCCCGAATTAAAATGTGTGAGTAATAGACTAGGAAGAGAAGAAAGCTGCCTTTGAAATGAGAAATACACTCATTGTACACAGTGTGCAATAAACTTGTCAGAATTCTGAGACAAGGGCAGAGGCTCTGGTTTGCTCGGAACCTGCTGAGGGATCACAGATAAGCTAAGTCATCATTTGTCACTATCCTTCAGCTGTGACACCCTTTCTGTTTTCTCTTAG
Seq C2 exon
GTTCACCCATTGCCACTGGCACAGGGACTCTTCTCCTGGTCCTGTCAGACGTCAACGACAATGCTCCCATCCCAGAACCTCGAAATATGCAGTTCTGCCAGAGAAACCCGAAGCCCCATGTCATCACCATCTTGGATCCAGACCTTCCCCCAAACACATCCCCCTTCACTGCAGAGCTCACCCATGGGGCCAGCGTCAACTGGACCATTGAGTACAATGACGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020151:ENSRNOT00000027346:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.320 A=NA C2=0.263
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=FE(51.6=100)
A:
NA
C2:
PF0002812=Cadherin=PD(14.7=18.4),PF0002812=Cadherin=PU(53.9=63.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]