GgaINT1011866 @ galGal4
Intron Retention
Gene
ENSGALG00000016138 | DSCAM
Description
Down syndrome cell adhesion molecule [Source:HGNC Symbol;Acc:HGNC:3039]
Coordinates
chr1:107653131-107654229:-
Coord C1 exon
chr1:107654116-107654229
Coord A exon
chr1:107653299-107654115
Coord C2 exon
chr1:107653131-107653298
Length
817 bp
Sequences
Splice sites
5' ss Seq
AAGATAGGT
5' ss Score
2.1
3' ss Seq
TGCACTTTGTTTCCTGTGAGGTA
3' ss Score
1.56
Exon sequences
Seq C1 exon
CTCCTGCCAGGATTTTGACGTTCAGCGGCACAGTGACAACTCCCTGGATGAAGGATATTGTCCTCCCTTGCAAAGCTGTTGGAGACCCAGCTCCAACAGTCAAATGGATGAAAG
Seq A exon
ATAGGTAACCAGCAACTAAATGTATAGCTCAAGTAAATCCCATTTCCTTAAAGTCCAGATGATGGTGAAGATGGTGATCTTAAATGACTGCATCAGGAAGGAGAAGGGTCATTTGTGAGGACCACACAAGGTCACAGTAGAGAAAGAATTTTAAAATTCCATGAACTAAAGCTAATTACCTATGGTAATTAGAAAGCATTAAATGGGAAGAAAACTAAATATCCAAAATGTTAAATTGAGGAGACCTTTCTGCTTTAACTTCAGGGCCACAAAATTAATCTGAAAAAGCAAAATGTTTGATGCATTTAAATAGTCTTTTGGAGTGCAGTCTGTAAGCATGTGTCTTGCATATACCTTGTTTCCGCTTAGTCTGTTTTGATCTGTAGTTTCACAGTTCGATAGAGTCACACATGGAAAAAGTCATGGACGCTAATTTTCATCTATTATTTTCATCTAAGCACTGTGTAAGCAGTGACAGTGTAATGCTATGAGGCCATTGATAGATACACGCAACTATTCTTTTATAAGGATAGACTCTGTAGGAAGGAACTTTTATTCTTGCATCTTTATGAAAGAGTTGATAGTTTAAGGAGTGAGTTCTCAATTTCACTCAAACTTGGGCCAGGATATGTGTGTTCTTTAAATGGCAGGTATTTCCCAGCAAAAAATATTTCTTTACTGTCTTTAATAAAGAGCACCACTTCCCCACCCCCACACTCCAGTTTCTTTCTTTCCATTCTTAGCTTCTTAAAAAAAATCCAATTCTGAGTATCTTTGATTGTAACTTCTTTAATGTATGCACTTTGTTTCCTGTGAG
Seq C2 exon
GTAGTAACGGGACACCCAGTCTAGTGATGATTGATGGGCGAAGAAGCATCTTTAGCAATGGCAGTTTTGTCATTCGTACTGTGAAAGCAGAAGACTCTGGATACTACAGCTGTGTGGCCAGTAACAACTGGGGATCAGATGAAATAATTTTGAATTTGCAGGTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016138:ENSGALT00000025993:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(38.9=89.7)
A:
NA
C2:
PF0767911=I-set=PD(60.0=94.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTGCCAGGATTTTGACGTT
R:
AATTATTTCATCTGATCCCCAGTTGT
Band lengths:
262-1079
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]