DreINT0060109 @ danRer10
Intron Retention
Gene
ENSDARG00000028118 | dscamb
Description
Down syndrome cell adhesion molecule b [Source:ZFIN;Acc:ZDB-GENE-031118-67]
Coordinates
chr15:6175771-6176490:-
Coord C1 exon
chr15:6176373-6176490
Coord A exon
chr15:6175935-6176372
Coord C2 exon
chr15:6175771-6175934
Length
438 bp
Sequences
Splice sites
5' ss Seq
AAAGTATGT
5' ss Score
6.93
3' ss Seq
CTGATCATGCTTTCTTACAGTAA
3' ss Score
7.05
Exon sequences
Seq C1 exon
CCCCTGCTCGAATCCTGACATTCAGTGGCACTGTGACCACTCCCTGGATGAGGGACATTGTCCTTCCATGCAAAGCAGTCGGAGACCCCCCTCCAACAATCAAATGGCTGAAGGGAAA
Seq A exon
GTATGTTTAGTTTCTACATTCTTTATATTCAAAATATGAAAAGAGGATGGAGATTTTGTCCTTGTTTCACTGACAGTTTACTTGTCACAAACTCTGTTGAACACAAAAGAAGATAAAAACTAGTCGACTTCCATATGTTTTGCTAGCTTCCTACTAGTGATGTTGAAGGTTACTGGTTTCCAGCATTCTTAATATTATCTTCCTTTGTGTTTAACAGAAGATTTTTGTTTTTTGGAAACACATGAGCTGAATAAATAGTGAGTAAAAATGTTTTTGGAGGGTGAACTATCTTTTTAAATCTGTTCAGGTATGTCTGGCCAGACTTGCAAATGAAACTTATAGCACCTGAAATAATTAGTTTGATTGTGTTTTTTTATTCATTTCATTATTTTGCTTATGAAGCTGATATCTTGAAAAACTGATCATGCTTTCTTACAG
Seq C2 exon
TAATGGTACACCTGCTCCAGTTTCAATCGATGGTCGTCGCAGCGCTCACAACAATGGCAGCTTTGTTATTCGTACCGTCAAAGCAGAGGATTCTGGGTATTACAGATGTGTTGCCAGCAACAACTGGGGTTCCGATGAGATCATGCTAAATCTTCAGGTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028118:ENSDART00000148350:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.125 A=NA C2=0.117
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(40.0=90.0)
A:
NA
C2:
PF0767911=I-set=PD(58.9=96.4),PF0004116=fn3=PU(22.9=29.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTGCTCGAATCCTGACATT
R:
TGGACCTGAAGATTTAGCATGA
Band lengths:
279-717
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]