DmeINT0035009 @ dm6
Intron Retention
Gene
FBgn0260799 | p120ctn
Description
The gene Adherens junction protein p120 is referred to in FlyBase by the symbol Dmelp120ctn (CG17484, FBgn0260799). It is a protein_coding_gene from Dmel. It has 2 annotated transcripts and 2 polypeptides (1 unique). Gene sequence location is 2R:4595288..4609492. Its molecular function is described by: cadherin binding. It is involved in the biological process described with 8 unique terms, many of which group under: cellular component organization or biogenesis; biological adhesion; cell adhesion; synapse organization; cellular component biogenesis. 18 alleles are reported. The phenotypes of these alleles manifest in: larva; cell projection; sensory system; plasma membrane bounded cell projection; neuron projection. The phenotypic classes of alleles include: viable; stress response defective; phenotype; increased mortality. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of moderate expression. Peak expression observed within 00-18 hour embryonic stages.
Coordinates
chr2R:4595288-4600087:+
Coord C1 exon
chr2R:4595288-4595462
Coord A exon
chr2R:4595463-4599268
Coord C2 exon
chr2R:4599269-4600087
Length
3806 bp
Sequences
Splice sites
5' ss Seq
CGGGTATGT
5' ss Score
8.79
3' ss Seq
AAATTTAACTCCCTTTTCAGTTT
3' ss Score
7.6
Exon sequences
Seq C1 exon
CACTTAATAATGAACTAGTTCTTTTGTCACAAGCATTACAGAATTTCCTTTTTTGTGTATGATGTTGTACTAAATGCTTTAATATCTGGAAAATCGGATTTCAATTTTTTGTGAATATGTAGTTTTACATATGGACATCTATGGAAGCGCGATCTCTCAAACACAGCCTAATCGG
Seq A exon
GTATGTGGTATTAATTTAAACATACATATGTTGGAATTCGCATATAAAAAGGGCAAAGAGAGTGTTAATTAAATTACACGAATTCTTGTTTTCATCAAATCAAATTAAATAAGGAATGAAATTAAATCAAATTAAATCAAATGAAAAAAAATTAATTTAATTTTTTTAGTGATAGTTTGTGTAACATAATAAAACAAGAAAAATCGATAATTTAATTCGAGCTAATCAATCACTGTATGAAAAAAAGGAAGGAACTTATGTGTGTATACATGACATATAAAATGATACGCATGCAAAAATGCTTTAACAATAATATTTTCATTGTTATCAGGGCTTCTCAATGTACAAATTTATATACCTGTCTCCTATGAGTACATAGCTGTAAGGGAGTGGCTAGGTATTAAAGTGGCTTACAGTTTCGCTCATAATTCAGAAAGAATTACAATAATTTTCCCATGATTTATTTGAAAAAATATCACAATATAATTTTTTGTCTATCCATCCATGCCTTCCGTTTAAAGAATATTTAATAAAATTGTGTATATTATAAACACATATATTATTATGTATATTATGTATACATACTATTATTTTACCATCACTTTTACCATCCAATGAAAATTTGAGTTTTTATTAAAGCCCCCTCCCCTTGTTTGTCGTAAAGGATTCCTTGTTCGGGGGAAATTTGTATGCTATCCGCGATGGTTTGAGGCAGAAGACAAATTTGTCAGAGAACAAGTGATTCGTTCTCAATCATCCCATTTTCTCCTGAACTATTTTATGCGCTATTGTTGTACAACTATGATAGGACAACTACAGCAATTATTCCCAATGCTAATGACATTACATTACATTATATATTATATTTTATATTATAATATATTCATTTCATTCATATTCATATCATTTCATATTTTATATTCTTCATATCCGTTTAGCGGTTTTTTGACTCATTTCACAAACGAAACATCAACTATAGTTCATCACTATTTATTACCAAAAATTTTAAAAATATGTAACCTGTTTATTGCAAAATTGATTTTTTGAGGCACGACGTGCGGAAATAGGCACCTAAGAATCATTGTCTTCTAAAACTTTTCACAAGTCGCAAGCTGAATACTCTAATAACAATTAATCCAACAGTCATTTTACCCTTTACTCGTAGAGTAAAAGGGTATACTAGATTCGTTGAAAGGTATGTATGTAACAGGCAGAAGGAATCGTTTCCGACTATATAAAGTATATATATTCTTGATCAAGATCTGTCCGTATGAACGTCGAGATCTCAGGAACTATAAAAGCTAGAAGGTTGAGATTCAGCATACAGATTCTAGAGACACAGACGCAGCCCAAGTTTGTTGACCCACGCCCACTCTAACGCCCACAAACAGCACAAAACTGTAAAATGTGAAAAAGGTGCAAAATGACGCCGAAGAGAATATAGCTGACGAATACAGGGTAGTGCGTCACTTAGCGTTCCGCTAATCTACATAAGTGCGCTAAACGAAAAGAGCCAAGCAACATCGAAAGCACCGGCGCACAAGCGAAAGCGAAAACGAAAAGTTCACCGCTGCTGGTATATAAGGCTGTAAGCATTAGTGCATTAGCTTCGATTAACCTCCGAGTCGATCTAGCCATGTCCGTCTGTCCGTATGAACGTCGAGATCTCAGGAATTATTAAAGCTAATGGAAGTAAAGGTTGAAATTTAGAATACAGATTCTTGAGACAACCGCCAACACACCGCACAAAACTAAAAAGCCCACACTTTGGAAAATTTTCTTCATATTTTTTAACATTTCTATTAGTCTTGTAAATTTCTATCGATTTGCAAAAAAAAAAATTTTGCCACGCCCACGCTAACGACCTTAAACTCCCAAACTGCCACGCCAACATTTTTGAACCATTTTCGATTTTTTTATAGTTTTATTAGTCTTGTAAATTTCTATCTACTTGCCAAAAACTTTTCGCCAAGCCCACTCTAGCGCCCTAACCGGTCACGCCCACACTTTGGAACAATTTTTAAATTTTTTTCTCATTTTGTTCCCCAATATCTATCGATATTCCAGAAAAATTATGAAATTTCGCGTTCGCATTCACACTAGCTAAGTAACGAGTATCTGATAGTCGGGTAACTCGACTATAGTATTCTCTATTTTTTAAATTTATTATGTATTATTCTATTCTAAGCTATACTTGAATAATTGTCAGTTCAGGCAATGCAAAACTTGAGTTTTAAAAAGTATAGGAACTTGTAAAGTGAAGGGCATATTTAGTGAAATTTACAATGCATGAGGATACGTGTGCATACATATATCTTAGGAGCTTCATTTTCGTGTCCTGCCAATACAAGGCATCGTTAATTAAATCAATTCTGGTGCGACTGCGCTAATTACATATGGATCGTTCGTTAAAGTTCCTCATTGGGTAAGTTGGAAGAAGGTTAGAATTACCCGGATTGTGAAGTGCCTTCCTTAAATAATTATTTATAATACTATGATACGAATTTAAAATCGGATGGCAATAACTTATGTTTATTTTTGGACTTAGAAATTAGTAAGACCAAAATAAAATAAAGAAATCCAATCAAGTTTTCAAAGTAAGGGTTTTACGAATAATCTTGCACAGGGAAGTCTTCGCCAGAATCTGCATGCTTAGTATCAACTATCTAGCTTTAATAGTTCCCGAGATCTCAGACGTCATACCAAAGACATTAGAATAAAAAGATAAGTAATGGCCATACATTTATCAAAATCAATTTTGATGTAAGAATCGAAGGTACATTTTTAGAGTTTGTCAATTTCGTTGCAAAATTATCTACTAAAAAATTATATATAAAATTTAATTTCCTTTTAACTAATTTATTATCGTTTCATATTTTTATTCATGCTTCTAATTAATAATCGGGCATGCTCCGTTAATCGAATTCGTAAGGATTTTACAATTTCCATTTGAAATAGAAAAATCGATGCTTCGTTTTTCAAAATCGTAAAATTTTTTCGATTCGTAAAACGGACACTTTTGGTCTGGCCGAAATAATGACCTTTTTATATTAAATCAGATCTTATTTACAAAGGTGAAAAAATTATTTACAAATTATTTAAAGCATACATTTTCCAAATAAATAAAACACTTTTAAAAAATTTTTTTCAAACTGATTATATAAGCATACATTGTTTAAAATAAATATATATATATTTCTTATATATATATATATAAAATAAATATAAAAATACAACCAGTTTTTTTTTTAATTGACTTCTTGACTTTTTTTGACTTTTTGACATAAGCACCTTAAAATAGTTGTCTTTCTCTCATTTTTCACACGAGGCCAACTTAATACTCGAATTTCAATTAATCCAATACAAAGTCATTTATGAAATTTATTATGTGATATTATGCTCATAGATTCTGCTATTACAATTTCTATTCGAATTATCATGCTAAGGCAGTGCAAACCAAGAATTTTTTACATGGTGTCAATTGATCAAAAATAATATAAATGTAAAGCCTAAGAACCAGTAAAGTGAAGCATATTTTGTCAATGTGGTCGGCTGTCCGTGTATGCGTATAAGGGAGCTGCTGACTGTAGACCTGTCCGCTCTTTGGTTTTGGTTCTTGAACAAAAATTTGAGAGAGCCGGGAGCCAGATCTGGAGACAGCTCAATAAATTATTGCTATTCATATTGTAAGTACTGGTACCCTTTTTGTTTTGAACTCCGAACCAATCGAAATTACATCTAGATTAAACTAATAGTCGTTAATTATGCCGTGTTCGTATATTAAAGAAATTTAACTCCCTTTTCAG
Seq C2 exon
TTTAAATATGAATTCAACTCACATAAACATGGACCTTTCATTGACGCACGAGCCTGCAAACATGCAATCCCAATTTGGGTCTTTTCAAAATTATGATCAATTTTCGGCAGCAGGATATTCAAGCACTCCATTATATATAACAAAGCCCACAGGAGTAGGTGCAATAACAAAAGTTGCGCCACACTGCTCTCAAAATAAGATTGAGACGAACTCTACAGACAATTCCATTCCAGACATTGAGAATCATCCACTAGCTACAACAGTGAGATATGTACAAGCGGGTCAATATGAGGATACATCCGAATATGGTGTAGCTGGTTTGACTTGTGGAATAGACTCTGAGTACACAGCTGAAGCTGTCGTACCTTACTGCTATACGTCGGATGCAAACTATACAGGAATTCAAAACACGACTTCAAGTATTAAACCATTTTCTGGAAGGCCTTTTAATGATAACATAAATGGAGCAGAAGCTGTTGCGGATTCCCAATGTAGAACCTTTAAAAGTTCAGCTGAATTTAAATTACCTCAATTCGCCATGAGCTCTATAAATACAGTGCCGCAAAGATTGGAAGAAAAGGATGATTACATTGAAGGATCAGAAAATGATATTTGTTCTACAATGAGATGGCGGGATCCAAATCTTTCAGAAGTAATAAGCTTTTTAAGCAACCCGAGTAGTGCTATAAAAGCTAATGCAGCAGCCTATCTACAGCATTTGTGCTACATGGATGATCCAAACAAGCAACGTACAAGATCTCTGGGAGGTATACCACCATTAGTTCGACTGCTATCTTATGATTCTCCAGAAATACATAA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0260799:FBtr0111114:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.135
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0051418=Arm=PU(70.7=10.6)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0110406
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)