DmeINT0007033 @ dm6
Intron Retention
Gene
FBgn0039874 | CG2135
Description
NA
Coordinates
chr3R:31769901-31770534:-
Coord C1 exon
chr3R:31770218-31770534
Coord A exon
chr3R:31770163-31770217
Coord C2 exon
chr3R:31769901-31770162
Length
55 bp
Sequences
Splice sites
5' ss Seq
TGAGTCAGT
5' ss Score
-2.15
3' ss Seq
CGCGGATGTCTTACCTTTAGATT
3' ss Score
8.01
Exon sequences
Seq C1 exon
ATCCGCGGGAAGGGATTGGATAATGCGCTTCTTGCTAGAGATTTTAACCTGCTGAAGTGGACTGGAGCCAATGCATATCGCACCTCTCACTATCCTTATTCCGAAGAGTCAATGCAGTTTGCCGATCAGCATGGTATTATGATTATTGACGAATGCCCTGCTGTCAATATAGATATCTTCGAGCCGCAGCTACTGGAGAATCACATGTCCTCGCTGGAGCAACTGATCCACCGGGACAGAAACCATCCAAGTGTTGTTGCATGGTCGGTAGCCAACGAGCCGAGATCGAACAAGCAGGGAGCCCTTAAATACTTTGA
Seq A exon
GTCAGTAGAAAGTACATCTTAGATCAAAAATTTAACGCGGATGTCTTACCTTTAG
Seq C2 exon
ATTCCTGGTAAACTATGTAAGAGAAATAGCTCACGGACGACCTCTAACCGCGGCTATAAATGCCAACTCTTCCAGTTGCCATTTGGCGCAGTTTCTGGACATCGTGGGTTTCAATCGCTATAACTCTTGGTATCAGAACTCGGGCCGTACTGACATGATACTTAACCTGTTGACGATAGAGGCCCAGAGTTGGCGGGATAGGTTCGGAAAGCCTGTCATCCAATTTGAGTACGGCGGCGACACTATGGAGGGCATGCACTCA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0039874:FBtr0085858:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0283612=Glyco_hydro_2_C=FE(35.0=100)
A:
NA
C2:
PF0283612=Glyco_hydro_2_C=FE(29.0=100)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0085217
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGTGTTGTTGCATGGTCGGT
R:
TTGGCATTTATAGCCGCGGTT
Band lengths:
135-190
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Neural diversity
- Neurogenesis
- Neuronal activity
- Splicing factor regulation (brain)
- Splicing factor regulation (SL2)