DreINT0060100 @ danRer10
Intron Retention
Gene
ENSDARG00000028118 | dscamb
Description
Down syndrome cell adhesion molecule b [Source:ZFIN;Acc:ZDB-GENE-031118-67]
Coordinates
chr15:6197862-6198600:-
Coord C1 exon
chr15:6198504-6198600
Coord A exon
chr15:6197991-6198503
Coord C2 exon
chr15:6197862-6197990
Length
513 bp
Sequences
Splice sites
5' ss Seq
AAGGTGACG
5' ss Score
7
3' ss Seq
TTACCATGCTTTTCTCGCAGATC
3' ss Score
11.57
Exon sequences
Seq C1 exon
ATCTTACACACTGTCAGAGAGGATTCTGGCTTTTTCTCTTGCATCGCCATTAACTCTTATGGTGAAGATAAAGGAATCATTCAGCTCATAGTTCAAG
Seq A exon
GTGACGATTGTTTGACGATTTATTTGACTGTTCAGGTTTTATATACTGGTGATCAAAATATATATTTTTTTAAATCCCATAATGTTTTAGAAATGTTAAAAAATACAGCGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGAAAGGAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGGAAGGAAGGAAGGAAGGAAGAAAGAAAGAAAATGAAGGAAGGAAGGAAGGAAGGAAGAGAAAGAAAGATAGAAATAATGAAAGAAAGGAAGAAAAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAATCATTTACTCCCACTAGTTTTTTTTCCAGGAGTTTATTTTTTCTTCTTAACTTGAATGAATTCTGTCATTCACTCGTTAAATATTGTGATTAAATTTTGTTACCATGCTTTTCTCGCAG
Seq C2 exon
ATCGTCCTGACCCTCCTGAGGTTGAGATCAGAGAAGTAAAGGACCGGACCATCGCACTTCGCTGGACCATGGGCTTTGATGGCAACAGCCCCATTACAGGATACGACATCAACTATAAAAACAAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028118:ENSDART00000148350:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=NA C2=0.207
Domain overlap (PFAM):
C1:
PF0767911=I-set=PD(31.6=90.9)
A:
NA
C2:
PF0004116=fn3=PU(47.1=93.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTTACACACTGTCAGAGAGGA
R:
GATGTCGTATCCTGTAATGGGGC
Band lengths:
206-719
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]