DreINT0060117 @ danRer10
Intron Retention
Gene
ENSDARG00000028118 | dscamb
Description
Down syndrome cell adhesion molecule b [Source:ZFIN;Acc:ZDB-GENE-031118-67]
Coordinates
chr15:6164811-6166583:-
Coord C1 exon
chr15:6166434-6166583
Coord A exon
chr15:6165009-6166433
Coord C2 exon
chr15:6164811-6165008
Length
1425 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGA
5' ss Score
7.61
3' ss Seq
GTCCATTTCTGTTCCCTCAGACC
3' ss Score
8.55
Exon sequences
Seq C1 exon
ATGACCGCTCCACAGTGCTGTTGACGGACAATGACTTTGGAGAAACATCTAAACAGAAGTCCTCAACCGTCACCCATACAGTGCATTACCAGTCTCTATCTCAGGCCACTGGACCACTAGTAGACGTGTCTGATGCTAGACCTGGTACAA
Seq A exon
GTAAGAACTCTACTAGTCTGCATGCTTGTGTTAATGTTGCATGTCGAATGATAGCGAAACAATTAGCATTAGTAAACTGCAAATAGTAAAATACTCTGCCCAAGATCCTCAATTCATGGTGGACTGAGTAATCAATTAAGTATTTGCATTAAAGTGCACCCTATGAAACGCCATTATTCCATGGTGTGTTGAAATTCTTGATTCTGATTGGCTGGATGATGTTTTGGTGACTATATATATATATATATATATTGCGTTGGATGTTGGTTGCCATACCTAACAAATAAATGTTAGTAATTGTCGTCAATATGATGTTGGTTTAAGATGTTGGCCCGACGTTAGAATTTGGTCACTTTCTAACGCAATCTAAAATAAACCAAATATCAACGTCATTTTACCTTGTTATTGGACATCAAACGTTATCCATAGACGCTGGCTAGACATTGAATTTTGGCCACATGACATCACAACTTAAATTAAACCTAATATTAACGTCTTATGATGTTGTGTGCCTGCAGGGCAATAAATAAATGTACTACAGAATGTTACGTTTACACACATCCACAAAAGACATGTAAATGCATCAGCATTTTGCGGTGTAATACTCAATACCCACTACTCTTGAGTACTTTTAAAAGGTCATTTTCAGTGAGTATTTTTCTTTTGATGAACAAAAAAATATATTCTGAAAAAGGTTGAAAACATGTAACTATTGACTTCCATAGTATTTGATTTTAATACCATGGATGCCAATTGTTACAGGTTTTCTGCATTTTCTCAAATTTATTTTGTGATCAACAGAAAAAAAAATAAACCAGGTTGAATAGTGAGTACATTTTTCTTTTTGGGTGAACTATCCCTTTAATATAAACACTGGAGATCCAGCCAACAATTTTAGTTTCTAAAACAATTCCCTTAATGTTCCCATTAAGTTCATTAATTCATTCATTTTCTTTTCGGCTTAGTCCCTTTATTAATCAGGGGTCGCCACAGCGGAATGAACCGCCAACTTATTTCTTGCTTATAATAATATTATTCAAATTTCTTTCTCAGAAGGTTATTTTAAACATTATTAGAACATTCCAATCACATTTTATCAAGTAAACAAAAACTAATACTAAAACTGTAGGCCAAAAAACATGTTTGTTAGCTGAAATTAATTTTAAAAAATCACAGTAAATGAGAAACTAACAACTTTTACTGAAAAATAAACTGAAATAAAATAATAATTCATTTTTAGATATGTGGCTTACATGAAGCAGAACTTTTGGTGTTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATAACACCAAAAGTTCTGCTTCACGTAAGCCACATATCTCACTTTGTAATGTATTAATATATGTCCATTTCTGTTCCCTCAG
Seq C2 exon
ACCCCACTGCCCGCCGCACAGCTAAAGCAGGTCCTGCCACACGCAGTCGTTATGCCAGCCAGTGGACCCTGAACCGGCCACATCCTCCCGTCTCCTCACACACACTCACTACGGACTGGAGGTTGCCCACTCCGCGCGCCACAGGCTCGGTGGACAAAGAGAGCGACAGCTACAGTGTCAGTCCCTCTCAGGACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028118:ENSDART00000148350:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.941 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF083746=Protocadherin=PD(20.3=58.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGACCGCTCCACAGTGCT
R:
CCTGAGAGGGACTGACACTGT
Band lengths:
342-1767
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]