DmeINT0017606 @ dm6
Intron Retention
Gene
FBgn0259822 | Ca-beta
Description
NA
Coordinates
chr2L:11161068-11163098:-
Coord C1 exon
chr2L:11162984-11163098
Coord A exon
chr2L:11161291-11162983
Coord C2 exon
chr2L:11161068-11161290
Length
1693 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
ATCTCTGTACTTGTTTTTAGTTA
3' ss Score
7.63
Exon sequences
Seq C1 exon
ACGTATTGGAAGGCCACCCACCCGGACATTCGAGCAGTGCCGCCCATCGCCCGCCCCCTGCCGCAGGAGGCCTCGCCCTCCGCAGATCCCGCGCGTCTGGGACCGACGCCTCCAG
Seq A exon
GTAAAGGAACACCTGCCCGCTCGTTCGGGCTCATCTACGGTCGCATTGCCATTTTCATACGAGCGATTCCACCAAAGTCCTCGCCCATGCCCAAGCAGCTGCGAAATTTCAATCAAACCAATATCAATATCAATATCGATATCGAAATCAGAGTCACCCATTATTGCCTCTCACCTTCCCAATTCAAACGAATTCGATCCGACGACCCATTAAGAATACATATCAGCATGTGTGTACATAGCGATGGATATGTTATGTATGCACATCAGATCAGCAGTAAAATAATTTTCATTTGCTTCTCAACATACTCAACACACTTATACAAAATACAATTCTAAAATTTGTCTTTTTCAAATTTAAATTCCCATGACTGTACCAAATAAAACCAATCGATTCTCCTTCTGGCTCTCTCTCCCCCGATTTCCAACGCGTGGTGGTGGGCACGGTGTGATGAGCAGTAGATGGCGAGGAGTTTGTCGATGAGCAGGATCCCAGGATGGGCATGTCCGGCGGAGATCGCGAGGGAAGTCGGGAGCGAGACCGCGATAGCAGGGAAAGGGAGAGGGAGCGCGAACGGGAGCGGGATTACTGGGATCGGGAATTCAACAGAGATCGCAGCTCCAAGGATCGCGAAAGGGATCTCGAGTGGGAGCGGGAACGGGCTCGCGAGTGGGAGAGAGAGCGGGAACGAGATTGGGATAGGGAGTTCGATTGGGACCAAGGTAAATTTCGTTTATACTGTTTCTTTTCGTTTCGTTTACTTTTGTACCGATAATATATATACGTAAACTCATTAAGTATCACTTGCCCCCAGAAATCGAATTAAAGATATATAGCATTCGGTTCTACTGAAAGTTTAGCTAGAATTACCTCGTCCCAAGTTAGAAGTCCATATGAAGTTGTAGCCTATTGTATCTCTCTTATACATAGATTGTACATAGACTAAGGTGAAAAGTAGCTTCGGCACCGGCTCACATCTCCACCCATCTCGATTGTATGTAGCTGCAGCTCATGGCATTTACTTAGAACTTTCCCGCTTTCTTCTAGACACATTTTGTACATATAGCTCTCAGCAAACAACATCACTGGTATCCTCAATTTTTCGTTTATTTTCTATCTTTGTTTCTATTTTGTGACCACACTTTACAGCATTCACAGCACGTGACATACCCGGTCCCTTTACAACAATGCTATAGATCAAAACGAGTTCAAATCTAAATCAAGCACCACGACCAACACAACTGCGACATCAACAGTACAAAATGCCAAAGACAATTGAACCCGAATTGAAATTGAAATTGAAAACCAAAAGCAAAAACCAAATCAACTGGAACTAGCAAAACTAGCACCCACCGACCGACATCTCCGACGATCTCCACCAGTACAACTCTTTGCCAAGTCAAGACATCCACGAAATCCATGTGATGAGGTGTGCGCACACCCTCGAGATTAAACCAACCCCCCCGATTGCCCACTAATGTTAGCCGACTAAGACTACCTTTCTGCCGTTTGAGTTCTACTAACCGATTAAAAGCGAACTGCACGAACTGCAATCGTAGTGCCCTCCTAGTGCCAAGCCCTCTCAAACATCCGTCATCAATCAATCAAGTCTAGCTAATCGATCTCACCCATTCGAATATTTGTTCCATTCCAATCGTGCGTTTTATCGACTGATCTCTGTACTTGTTTTTAG
Seq C2 exon
TTACACCGGGTGTTGTGCGCCTGTAAACTGCCGCAATCCGCGCCAAACCCGATTTCTCACATTCTTCCGGGTGTTTTCCTAGATCAGCTCAACTCAACCCAAATCAGCTCAGTTATAATATATACTATATATATATGTACATGTATTCCGTTATTGTCGAACCTTATGTTTTCACCATTTCAAGTTGCAAAAGCAAATCATCTAATCGTTTAGATCTGGTTTA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0259822:FBtr0300536:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.706 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=PD(0.5=2.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0301964
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0289763
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:
CGTATTGGAAGGCCACCCAC
R:
GCTTTTGCAACTTGAAATGGTGA
Band lengths:
308-2001
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)