DmeINT0034582 @ dm6
Intron Retention
Gene
FBgn0261617 | nej
Description
The gene nejire is referred to in FlyBase by the symbol Dmel
ej (CG15319, FBgn0261617). It is a protein_coding_gene from Dmel. It has 5 annotated transcripts and 5 polypeptides (3 unique). Gene sequence location is X:9665442..9687066. Its molecular function is described by 10 unique terms, many of which group under: binding; protein binding; transferase activity, transferring acyl groups; transferase activity, transferring acyl groups other than amino-acyl groups; transcription factor binding. It is involved in the biological process described with 26 unique terms, many of which group under: positive regulation of signaling; behavior; transport; response to temperature stimulus; macromolecule biosynthetic process. 63 alleles are reported. The phenotypes of these alleles manifest in: cellular anatomical entity; epithelial tube; cell projection; intracellular; neuromuscular junction. The phenotypic classes of alleles include: partially lethal; majority die during P-stage; increased mortality during development; phenotype. 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 00-12 and 18-24 hour embryonic stages.
Coordinates
chrX:9682552-9685667:-
Coord C1 exon
chrX:9685503-9685667
Coord A exon
chrX:9684152-9685502
Coord C2 exon
chrX:9682552-9684151
Length
1351 bp
Sequences
Splice sites
5' ss Seq
ATGGTATAA
5' ss Score
2.05
3' ss Seq
TTCTTCTTGTGCGTTTGCAGTTA
3' ss Score
9.2
Exon sequences
Seq C1 exon
GAGCTCGGTGGTGTATTTGAACGGCTAGCCGCGGTCACACTGAAGCAAAAACATTTTTGGCTCGGAGAACGATTAACACAAGCGGACTGAAATTTTTTTGTTTTAGTGTTGCGAAAAAGTTTGTGGGATTTTTATAAAATCGCCGGAAAATGTGAAAAATATATG
Seq A exon
GTATAAAACCGAAATTCGGCAAAATTGCAAAGTATAGTTAGAAATTTAGTGCGTGGCAATCGGTGACGGTGGAAAAATAAAAATACCGGCCAAAATCGGGCTGAAATTTTTTTCAAATTTTCTACGGCATTTTCTTGAATTTCGTATTTTCGCCAAATATTTTTGCGATTTTTGTGTGGGCCGGGAAAAATGAAAAACGCTCTGGCGGAGACAACACAAAAAATTTCTGCAATAGAAACTTTGAAACGACGTGAAGAAGAAAACGAAACGAAAACGACGAACGAACACAGAAAAAAAATGGAATATATTTCTGTCGTCTGTTTTTCTTTCTTTTTCCAATGCTCCTCGCACTCGTTGCCGTTTACCGTCGTGTGTATATTGCACACTAATGCCGCTTGGCACTAATACCATCGCATGCTTTCTCTCTCGGACTCGTGCTCGCTCTTGCACGAACTCGCTGTTTTCGAAGTGTGCGTGTGTGTAACTGTGTGGTGAAAACGGCGTTGGCGTCGCTGTGAGAATTCTGTACGCGCGCCCCAAACCCCAAATGTGTGCGTGCGTGAGTGTGTGAAAGCTTTTGTCAGCCAGCCCCACTGCACTCTAGTGTCATCCCGCTCGCACCCCACTCGCCACTCGCCGCCCCAACAAATTGAATTTCATATGATGGCCGCTCGAATGCGGAAGCAAAACCAAAATACGGCCACTTTTTCGGCCATTTAATTTATAAACTAGACTATAGACTACAGCCGCAACTGGCTGATACTTCAATTAATTTTTTTAAGCAGTGCTCTGACTTTTATTACCTGTAAAGGTGTGAAATTTTTTTTCCAAAAATGTATTTGTCATAAAAATGTTAAGCATGTTTCAAAGTATATTTTTGCCAACGACGGCACTTGTTTTCCATATTTTTTAGGGGACTGGCGGCAAAATGAAATTATTATTTTCATTTTCGTGGTGTGCGCCAAAAGAGCGAGAGGCCAACACACACGTCTGCGAGTAAAATAACGAGTACAGCGCTGGTAGTATTGGCGAATAAAATTGCGAGGCAAGAACAGACAAGAGAGAGAGAGAGAGTGAGTGGTCGTCAAGCGGCACACAGATGAGTGCAACGAGACCGAGAGAATTCTCGGTACTGTTCTCGTTGTTCTTCCCTTTTCGCCCCGTCTTCGGCACGTCTCGTCGCATTTTAGTTTCGTTTTGTTTCCATTTTCCCCTCGGTTTCGCTGTCCACTCGCGCGCGGCTAAATTACAAAAAAGAAAGAAGAAAATAAATAAATATTGCTTTCGATTTGTGTTCGTCCATTCAACATAATCTAATAGGCTGTGTATTATTCTTCTTGTGCGTTTGCAG
Seq C2 exon
TTAATGTGTAATGCTAGAGCGGCAAACGTCGGCAGCAGCAGCAGCAGCAACAACATCAGCATCGACAAAAACAACAGCAGCGCGCCAGCAACAAAAACAAACCGAAACACAACAAACCCAACAACAGCCAACAATGTGAATTGCTTTTTTTTCCTTATTAATTGTAAACGATAACCGAATCAAGTGCAATCAAAATTAAACACAAGCATATATAATATATGGTCAAAATATCTATATATATATATATATATTCCTGTGTAACAAAAAGCCGCCAAAAACAAATCACATAAAATATGTAAGATAGCGGAGAAAAAGGCGGAAAGAAAAGGAAGAGAAAGAGGAGAGAGCCAAACCAAGAACCGTTCTTTTTCGCTCAGTGGAGGCAGGCAGGCAACAACAGACAAACAAACAAACAAACAATAACAAGAGCCGCCCAGCCAAGGTCAACTTTTGGTGTTTTTGGGGCCCAACAACACAAAATGCACGCGTGTGTCTGCTGCTGTTCGACAAACAACAATTGCAACAACGAGAACAACGACGGCAGCAGCAGCAGCAGCAGTAACCACAACAACAACGACAGCAGCATCAGCAGCAGCAGCAAAAACAAATTGCAGCTAAAAAAGCGCAGGGCCGAAGTCGAAGAAGAAGAAGAGGTACTGGTCAAGCGGACGCAGGATAAGAACAAGCATCAAGAGGAGCAGGAGCAGGAGGAGCACCAGGCGGTGGAAAAGTTGTCTGCTGGCCAAAGCGCCAGTGGCGGCGACAACGATCTCAACGGCGCCGCAACGAGAAGGCGGTGGTGGCTGCGCGATCCTCCAGGATCAGCGGAAGCGGCAGAAGGAGAGGGAAAAGGCGAAGGAGTGGAAGTGGGTGTGGGAGCAGAAGGATCAGCGGGCACAGGTCCGACGACGTGGTGGTGGTCAGCTCCATCCGTTGACGTTGCGGTGACGATAGCGCCGGCTACGTTGTTGCTGTCGTTGCAGCGGCAATTAGCAAAGGAATTATCTAAATCAACAACAACAACTGCAACAAGAACAACAACAGAAGCCACATCCTTAGCAATAAAAAGCGGAGCAGCAGCGTTAATATCATCATTAAGTGCAAGCATCGCCAACATCATCGATTACAAGATCCCAAAACACCAATACCAAAACCAAATCCCAATCCTCGCCAGCCACGCCTTTTGAGTGCCTCTTTGTGTGTTGTGTATTGTGCGTGCGTGTGTTGCAAAGTGTCCAAACTAATCAAGAAATCTACAACTTAAAACACTAAACACTTAACCAAACAAACAACCTGTGCAACAATTGTCAAAGTGCTAGGCGACAAATAATTTCTGAAAGAAGATTTGACAAGTTCCAATAACGAAAATATCAGAACACACTCGAACTCCAACATAGACGGATCATTGGAGAGTTAGTGAAAAAAAAAAGCGAAAAATCAGAAAAACTTTATAAACTAATAGAAACAATACTACTCAGATTTTTCGAACGTTTTTCGTCTGCGTTTCTGTTTTTTTCCGAATCGAAAGAATCAAACTAACTCTATATGATGGCCGATCACTTAGACGAACCGCCCCAAAAGCGGGTTAAAATGGATCCAA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0261617:FBtr0071402:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=1.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0071337, FBpp0291862, FBpp0291863, FBpp0305701
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:
TCGGTGGTGTATTTGAACGGC
R:
TGCACTTGATTCGGTTATCGT
Band lengths:
349-1700
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)