DreINT0060113 @ danRer10
Intron Retention
Gene
ENSDARG00000028118 | dscamb
Description
Down syndrome cell adhesion molecule b [Source:ZFIN;Acc:ZDB-GENE-031118-67]
Coordinates
chr15:6169389-6171340:-
Coord C1 exon
chr15:6171050-6171340
Coord A exon
chr15:6169566-6171049
Coord C2 exon
chr15:6169389-6169565
Length
1484 bp
Sequences
Splice sites
5' ss Seq
GCAGTGAGT
5' ss Score
7.39
3' ss Seq
TGGTTCCTTTTTTTCTTTAGGCA
3' ss Score
9.78
Exon sequences
Seq C1 exon
AACCACAGTTCGCCAAAGACCACGAGCTTTTCTCAAGTATCAACTCTACCCGCGTGGAGCTCAACCTCATTGGTTGGAACAACGGTGGCTGTCCAATTGACTCCTTCACACTAGAATATCGGCCGGTAGACACTACCAAGTGGACTATGGTAAAGCGGGATTCCCTCACCAAGAGCCACATTCTGTACGACCTACAGGAGGCCACCTGGTATGAGCTCCAGATGAGAGTCGGCAACAGTGCAGGAACAGCGGAGAAGAGGGTGCTGTTCGCTACTCTGAATATGGATGGCA
Seq A exon
GTGAGTGCTAGATTTTATTTTATTACAAACAGTTGAACGATTTTAGATTTTTAAAAGTCGAATTTTAGCTTATTAAAGTAGACATCGACTAGTCACTGGTAGTGTTGGGGGTAACGCGATATAAGTAAAGCCTGGTTTATACTTCTGCGTTGAGTGATCGACGTGACCCACAGCGTATGCAATGTGCATAGCCGTGCATTTATACTTCTGTGCGATGTTTGAGTCCCTCTGTAATAACACGAAACGCTAGCTGGCAGTAGGTGTTTATGTTCCTTTGTAGGTGTTTTGTTTTTTTCTGAACGCTTCCTTAATGTACAAGTGGCTCAAACTTGCTCATTTTGTGGCTGGAATTGGCGGACGCCCAACGACTTTAATCATAAGGTAAACACAAAACAACAGTCTCCATCCGGAGCTCCTTCATGAGACACCACACTTGTAAACACTCGCTGCATCGGGCTCGCACGGCTCTCACCTCCGCCCACACTATTCAGCGCTACCAAGACGACCATTCACAGAGCTCACGCTAAGCGTCGTTGAGACGGGTAGTTACATTTTTTGAGAGGTGCGCATCAGCATCGCCGACGGCCATGGCAAATGGTTTGCGTCCACGCGTAGGCTGCGGAGTAGCATATGCGTGCACTTGACATAGAAATATAAATCAGCTTTAACTCGCGTTACGTATTAATCCAAAGTAACGAGTAAAGTAACGCATTGCTTTGAAAAATAAGTAATATTATTTGAGTTACTTTGAATTACCTTATTAATTGGCATAGTGCGGAATAAAATTGACCTTAGTCAGGTTGAATTACACACACTCAATGAGAGAGTGTGCTGCGAGGGAAGAGACAGTCGACTCGCACACATCATCATCAACAGGTATCCTTTTTAACAGCAGATGAGTCAGTGTACTGTTCTAGTAACTGAATATCTAAGGATATGGATTTATTTCGAGTCAGAGGGAATATCCAGTATGTTAGTACTAAGGACGTAAACCGTTTCAAGTAAACTCTGTTCAATTTAATGAACTGGTTCGAACAAACGATTAAAACATTTTCATATCAACATATTGGGACAATATGAATATAATAATATAACTTTCATTTGGGCGACGCGGTAGCGCAGTAGGTAGTTCTGTCACCTCACAGCAAGAAGGTCGCTGGTTCGAGCCTCAGCTGGGTCAGTTGGCGTTTCTGTGTGGAGTTTAAAGACATGCGGTATGCGTAAATTAGGTAGGCTAAATCGTCCGTTGTGTATAAGTGTGTATGGATGTTTCCCAGTGATGGGTTACAGCTGGAAGGGCATCCGCTGCGTTAAACATGTGCTGGATATGTTGGCAGTTTATTCCATTGTGGCGACCCCGGAATATTAAAGGGACTAAGCCTAAAAGAAAATTGATGAATGAATGAATATTTATTCATTGTGATCTATAACTTTAAGAAAATAGTTGGATTTCTTGTCATATCTTGGTTCCTTTTTTTCTTTAG
Seq C2 exon
GCACAATTGCTCCATTGCCAAAGAGCGTGGACCCCAGCCAGGAGAACAGGCAGGGAAATGAAGGACTTAAGATGATGGTCACGATCATCTGCATTCTGGTGGCAATCTGCATGGTCTTCATCGTTCTTCTAGTATTGAGGAGGAGGAGAAGAGAGCAGAGACTCAAGAGATTACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028118:ENSDART00000148350:22
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=0.286
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=80.6),PF066797=DUF1180=PU(22.1=17.3),PF083746=Protocadherin=PU(6.1=9.2)
A:
NA
C2:
PF066797=DUF1180=FE(75.3=100),PF083746=Protocadherin=FE(39.2=100),PF0200911=Rifin_STEVOR=PU(85.5=79.7),PF145841=DUF4446=PU(45.7=62.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTGGAGCTCAACCTCATTGG
R:
CCATGCAGATTGCCACCAGAA
Band lengths:
353-1837
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]