DreINT0060101 @ danRer10
Intron Retention
Gene
ENSDARG00000028118 | dscamb
Description
Down syndrome cell adhesion molecule b [Source:ZFIN;Acc:ZDB-GENE-031118-67]
Coordinates
chr15:6196375-6197990:-
Coord C1 exon
chr15:6197862-6197990
Coord A exon
chr15:6196543-6197861
Coord C2 exon
chr15:6196375-6196542
Length
1319 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAA
5' ss Score
6.68
3' ss Seq
TTTCTCTGTATTTCTTGAAGCTT
3' ss Score
8.29
Exon sequences
Seq C1 exon
ATCGTCCTGACCCTCCTGAGGTTGAGATCAGAGAAGTAAAGGACCGGACCATCGCACTTCGCTGGACCATGGGCTTTGATGGCAACAGCCCCATTACAGGATACGACATCAACTATAAAAACAAATCAG
Seq A exon
GTAGAAGATGATATATGATGATACAAATTGTAATAATTGTAATAATTCTGACTTTAACTGTACTTATTTACATTAAGATGAAACAACACAATTCTTGATATTTTTTGAGTACAACTTAATTGTTTTATATTTAATCCACTTAAATTTGTTAACTTAATTGATTTGAATTGGGATACTGCAAATAAATTTATTTTTTGTTTTATTTCGGCTAGAATAGAAAAGAAATATTTTTTTGAACCATTTTAAGGTCAGCCTAATTATTAGCCCTCTTAGAAATTTTGTCACCAATAGTCTACAGAACAAATCACTGCTAATCACATACAATGACATGCACTGAAAAAAAAGGATTCAAAGATGATTCGTTGGATTTATTTTTTTAAGTTAAGTGTAAATATATTTGGTCTGAATTTAAACAAATTAAGTTGAACAAATTACTAAATTTAATTTGTTTAAGTTCAACCCACATAAATTGTTTGCAACCTCTAAATCTTTTTTTTTCAGTGTACCTAATCACCTCAACTTGCCTAATTAACCTAGTTAAGCCTTTAAAAATCACGTTAAGTCTTGTATCTTGGAAATATCTAGTAAAATAGCATGCACTGTCATCATGACAAAAATAATTCAATTAGAAATTAGTTAGTAAAACTTATTTTTAGAAATGCAGTTAAAGTCAGAATTATTATCCCCCTGAATTATTAACCCCCTTGTTTATTTTTCCCCCAATTTCTGTTTAACGGAGAGATTTTTTTAGCGCATTTCTAAACATAATAGTTTTAATAACTCATTTCAAATATATTCATTAATAACTAATACATTTATTTTATCTGTCATGATGACAGTAAATAATGTTTTACTAGATATTTTTCAAGACACTTCTATACAGCTTAAAGTGACATTTAAAGGCTTAACTAGGTTAATTAGGTTAACTAGGCAGGTTAGGGTAATTAGGCAAGTTATTTTATGACGATTGTTTGTTCTATAGATTATGAAGAAAATATATAGCTTAAAGGGGGTAATAATTTTGACCTTAAAATGTTTTTAAAAAAAATTAAAAACTGCTTTTATTCTTGCCGAAATAAAACAAATTAAACTTTTTTTCCAGAAGCAAAAAAATCTTCAGACATACTGTAAAAATCTCTGTTGAACAGCATTTGGGAAAAATTTAAAAAATAAAAAAAAATCAAAGGGGGCTAATAATTCTGACTTCAACTGTGTATGAAATGTTGATTTACTTTTATAATTACATCTTCAAGTTGTGATCCTTCTTGTGGTTTATATTGCATCATCACATACTCTAAATTTCTCTGTATTTCTTGAAG
Seq C2 exon
CTTCCTGGGCCTCATCACAAATGACCAAAGACGTCTCCCCTCAGCTGAATCAGGCCACCATCATTGAGCTTCACCCTGCTTCCACCTACAACATCCGCATGTTCGCCAAAAACCAGATCGGAGAAAGCAGACCGAGCAACGAGCTGACCATCACCACTGACGAAGCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028118:ENSDART00000148350:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.207 A=NA C2=0.398
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(47.1=93.2)
A:
NA
C2:
PF0004116=fn3=PD(51.7=78.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCGTCCTGACCCTCCTGAG
R:
GCTTCGTCAGTGGTGATGGTC
Band lengths:
295-1614
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]