DreINT0060106 @ danRer10
Intron Retention
Gene
ENSDARG00000028118 | dscamb
Description
Down syndrome cell adhesion molecule b [Source:ZFIN;Acc:ZDB-GENE-031118-67]
Coordinates
chr15:6181704-6183822:-
Coord C1 exon
chr15:6183667-6183822
Coord A exon
chr15:6181838-6183666
Coord C2 exon
chr15:6181704-6181837
Length
1829 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
CATTTTCTCGCTTAAAACAGTTC
3' ss Score
6.06
Exon sequences
Seq C1 exon
AGCTGGGAGAGATCAGGAACATCACTACCACCAAGCCTTCGCTGGAGTTGGAGCGGCTGGAAAAATACACCAACTACAGTATCCAGGTGCTGGCCTTCACTCGAGCTGGAGATGGAGTTCGTAGTGAGCAGATCTACACACGTACCAAAGAGGATG
Seq A exon
GTAAGACTTTCTCCTGTTGCACACACTTGTTTTTTTTTAATATATTGTATATATTGTAGATTATATGCACCTTTTGGTAACAATTTACCTGAAGGTGTGTTCATAAGACTGATTAAACTGTTATAATCGTGACATAACATGTCATGAATGTTAATGAAATTTTTTATATATTTTTTTGATATGTTTATTTAAAGTTATCTTTAAAGTGCTTCCTGAATTATAATTAGAGGCAAGTTTTACAAAGATTGTGCCATGGGTTATAGTCCAAATATACTATTTTTTTTTCCAACTAATAGGTTAATTGATCATTTGAATACCAAATAAATAAATCAAATTTTAAAGGGCAAAATTATAATAAAGAAATTATAATAATCCTTAAAAATATATTAATAAGTAAATAAATTTCCATCTTATTTAAATATATTTATCTTACTTGTTGATTAAATCCCATTTTGTTATTAAACCTATTATTTTTATGCAACAGTCAAGTTGCATGTTAATTTGCTATGAAGAAAAGAAAATAATTTATTTTTTGCATGCTGATTTATGTGAAATCATGAATATAGGTCTACATTATATAATCACCTTGCAATTTTAAAATGATTGTTTTTTTGCTTGAGTATAGACTATTCAGTTCATTAGAGCAGTTCAATCTTTTATAAAGTTTGCTGTTTAAAAATATAATATTTTAAAATATATTTATAATCATCGGCACATATATATATATATATATATATATATATATATATATATATATATAAAGTGAATTCAGACATGCCCTTAATGCTTTTGCACTATGCACTTTAGACTTTGCATTAAAATAGAGTCCAATGCTTTTGCACTATGCGATTTAGACTTTACACCTAGATTGTAAAAATAGAGCCCTAAAGGTTAGAACTTTGACATCACATCTTTGAATTTAATTATCTCTAAAAAAAAATATCTATTACCTGTGTATTTTAGTTAATTATATCATAAGAACTATTGTTATCAAATCTCAACAAAAATATTCTATATTTTACAAGTATTGTGCTGCCCTAAATGTTTTTTTGTTTTGTTTTTTTTGTAAAACACTGACACGTTTCCACACTTAAAGGCATAGTTCACCAAACAATGTCAGTTATGTTGTCATTTCTTTTTACTTTTTTCAAACCTATTTGAGTTTCTTTGAGTTGAACACAAAAAGAAGATATTTTGGAGAAAGCTAGTAACCTGTAACCATTGACTTTCATAGTATCTGCTGTTTTGAACGCCAGTGGTTAAAGGTATTCTTCAGAATTTCTACATAAACGTTTAGAACTTCTTGAGCTTGAGTAAATGTTAGACAAATTGTCATCTCATTTCAAAAATGAAAATTACCTCATCATTTACTCTCTCTCATGTGGTTAAAACCTTTATGAGTTCCTTTATTCTTGAACACAAAAGAAGAATGCTGGTACCCACTGATATCCATAGTAGGAAAAACAAATACTATGGAAGTAAATGGAAAATACTATGGAGTCAAAGCAACCAGCATCCTTTTTCAAGCTTCTTTTGTGTTCTACAGAACAAAGAAACTCAGGTTTCGAACAAGTGAATGGTAAGTACAGTAAATGATGACAGAAATTAAAATTTTGGGTGAAATGCCTTTAAGTAAGCTATATGTAGGTTGACCACTTTGCTTATTGCAGACATTTCAATCTAATGTCAAAAGAAAAACAAAATAGCTTGGAAACAATAAACTTACAGCTTCACATGCAAGTATTGGATAAGTTATAGATCACTTGGTATATAGTTTACACTGTCTTCGCCTCAACTAAAGATGTTTTTCATTTTCTCGCTTAAAACAG
Seq C2 exon
TTCCTGGCCCTCCGGCTGGAGTTAAGGCTGCTGCTTCCACAAGCTCGGTGGTGTTTGTTTCCTGGCTGCCACCACACAAGCTCAACGGGATCATCAGGAAATACATCGTCTTCTGTTCCAACCCTTACCCCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028118:ENSDART00000148350:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.219 A=NA C2=0.111
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(46.6=77.4)
A:
NA
C2:
PF0004116=fn3=PU(50.0=93.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTGGGAGAGATCAGGAACA
R:
TGGGGTAAGGGTTGGAACAGA
Band lengths:
288-2117
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]