GgaINT0111563 @ galGal3
Intron Retention
Gene
ENSGALG00000016138 | DSCAM
Description
NA
Coordinates
chr1:111741995-111743093:-
Coord C1 exon
chr1:111742976-111743093
Coord A exon
chr1:111742159-111742975
Coord C2 exon
chr1:111741995-111742158
Length
817 bp
Sequences
Splice sites
5' ss Seq
TAGGTAACC
5' ss Score
6.66
3' ss Seq
CTTTGTTTCCTGTGAGGTAGTAA
3' ss Score
-1.07
Exon sequences
Seq C1 exon
CTCCTGCCAGGATTTTGACGTTCAGCGGCACAGTGACAACTCCCTGGATGAAGGATATTGTCCTCCCTTGCAAAGCTGTTGGAGACCCAGCTCCAACAGTCAAATGGATGAAAGATAG
Seq A exon
GTAACCAGCAACTAAATGTATAGCTCAAGTAAATCCCATTTCCTTAAAGTCCAGATGATGGTGAAGATGGTGATCTTAAATGACTGCATCAGGAAGGAGAAGGGTCATTTGTGAGGACCACACAAGGTCACAGTAGAGAAAGAATTTTAAAATTCCATGAACTAAAGCTAATTACCTATGGTAATTAGAAAGCATTAAATGGGAAGAAAACTAAATATCCAAAATGTTAAATTGAGGAGACCTTTCTGCTTTAACTTCAGGGCCACAAAATTAATCTGAAAAAGCAAAATGTTTGATGCATTTAAATAGTCTTTTGGAGTGCAGTCTGTAAGCATGTGTCTTGCATATACCTTGTTTCCGCTTAGTCTGTTTTGATCTGTAGTTTCACAGTTCGATAGAGTCACACATGGAAAAAGTCATGGACGCTAATTTTCATCTATTATTTTCATCTAAGCACTGTGTAAGCAGTGACAGTGTAATGCTATGAGGCCATTGATAGATACACGCAACTATTCTTTTATAAGGATAGACTCTGTAGGAAGGAACTTTTATTCTTGCATCTTTATGAAAGAGTTGATAGTTTAAGGAGTGAGTTCTCAATTTCACTCAAACTTGGGCCAGGATATGTGTGTTCTTTAAATGGCAGGTATTTCCCAGCAAAAAATATTTCTTTACTGTCTTTAATAAAGAGCACCACTTCCCCACCCCCACACTCCAGTTTCTTTCTTTCCATTCTTAGCTTCTTAAAAAAAATCCAATTCTGAGTATCTTTGATTGTAACTTCTTTAATGTATGCACTTTGTTTCCTGTGAGGTAG
Seq C2 exon
TAACGGGACACCCAGTCTAGTGATGATTGATGGGCGAAGAAGCATCTTTAGCAATGGCAGTTTTGTCATTCGTACTGTGAAAGCAGAAGACTCTGGATACTACAGCTGTGTGGCCAGTAACAACTGGGGATCAGATGAAATAATTTTGAATTTGCAGGTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016138:ENSGALT00000025993:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(40.0=90.0)
A:
NA
C2:
PF0767911=I-set=PD(58.9=94.6)
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]