DmeINT0000406 @ dm6
Intron Retention
Gene
FBgn0000017 | Abl
Description
The gene Abl tyrosine kinase is referred to in FlyBase by the symbol DmelAbl (CG4032, FBgn0000017). It is a protein_coding_gene from Dmel. It has 11 annotated transcripts and 11 polypeptides (9 unique). Gene sequence location is 3L:16615866..16647882. Its molecular function is described by: protein tyrosine kinase activity; protein binding; non-membrane spanning protein tyrosine kinase activity; ATP binding. It is involved in the biological process described with 28 unique terms, many of which group under: protein localization; cell migration; lamellipodium organization; regulation of protein stability; chemical synaptic transmission. 59 alleles are reported. The phenotypes of these alleles manifest in: multidendritic neuron; cellular anatomical entity; embryonic/larval cuticle; actin cytoskeleton; amnioserosa. The phenotypic classes of alleles include: increased mortality during development; some die during embryonic stage; phenotype; increased mortality. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of low expression. Peak expression observed at stages throughout embryogenesis, at stages throughout the pupal period, in adult female stages.
Coordinates
chr3L:16622370-16626616:-
Coord C1 exon
chr3L:16626528-16626616
Coord A exon
chr3L:16625275-16626527
Coord C2 exon
chr3L:16622370-16625274
Length
1253 bp
Sequences
Splice sites
5' ss Seq
ATGGTATAC
5' ss Score
2.73
3' ss Seq
TTAACCATTCACTTTGGCAGGAC
3' ss Score
6.21
Exon sequences
Seq C1 exon
CCTGCTCTCGAGCAGTCGGGACTCCACTTATCGCGAGGAGGATCCAGCCAACGCCAGATGCAATTTCATCGACGACCTCAGCACGAATG
Seq A exon
GTATACACAAATTGAAAACTGCCAACTATTTCAGCCAGACCCTCTCAAGAAATTTCAAGACCCAAATTCCAACCCACCATACACACCAAATACGTACACAACAACAACAACAGCAACAGTCCGTACAACAACAACAACAAATAGTACCATTGTCAGTACAACAACAAGCACATCAACAACAGCAGAAACAACAACAGTATTCCATTAAGAAATCGTCCTCCTGCAGTAGTTTTCTTTACGACATCCTATTTCGAGGTATTTTGTAACCGGAGTCCATAGCGAAAATCTCCTATTCAAAAAAATTATATTTTGGTTCCTGTGTTATTTGATTTGTGTTACTTGTTTATGTTTAATTGTAATTGGTTTGTTACTACTTACATAAGTTTCTGCATTTATTGGTTGTTCATTGTGGAAGTAAGTCCTTCATAGTTGATTTCCGCGTTGGTAATTTTCTAAATTTAGTTGTTACAAAGTTATATTCGTGTCGATGATTTCCTAATGTAACTTCTTTTTTCTGTCTGATCTCTGAGCATTAACATTTTTCATTTGATGTTTCTCTAACCATCCCATTCCCACTTATTATATTGTTTGGTATTGTTCGTTATTTTATTGCTTTTATTTTTATTTTTTGCCTGCTATCATTATGTTGTGTGTTTTTTTTAGTTATGATTATTTTAACTATCATATGGTTTATATCCTTGAAAGTTCGTATTCTTTTAAGTATAATCTCGTGTTTAACTTATCTTGTGATCTTAGTTATTTTGCAATCCTTGTAGGGCTGTCAAATTCGATGGATCCTATATTACCCAAAATAGGATGGACTTTAAGAATATTAAAACTCAATTTTAAGAAATCAATGAAAACTAGTTGTAATGCATCCTTTCAAGGTTATACCAGATATTTTCCCAAACACTCATTTAATTATAAGTTGATAATTTGGTGTTTTCTAGTTTTACTCGCTCGACAAACATCAACGCACACATACACACCACAAGACTTTGGTCAGGATTAACCCATACCCAAGTGCCAGTGATGGGATGTACCTATATAGTTCGGTACTCTTAATAAACTCCAGTTTTTCTATACCGAGATATAAATACAATTTTAATTAATTCTAAGATCTAGAAGGTATTTCCCATCACTGACCATTAATACCACCCAGCATCAAGCACCTGGCACGACGCATTCTATTAACCAAGCATTATACATTGATTCCAAGCTAATCATTTACATTTAACCATTCACTTTGGCAG
Seq C2 exon
GACTAGCCCGGGACATCAACAGTTTGACGCAGCGGTACGATTCCGAAACAGATCCGGCAGCCGACCCGGACACAGATGCCACGGGCGATAGTCTGGAGCAGAGTCTGAGCCAAGTGATAGCCGCTCCGGTCACCAACAAGATGCAGCATTCTCTTCACAGCGGAGGAGGAGGAGGAGGAATAGGTCCTCGATCCTCGCAGCAACACAGCTCCTTCAAGCGACCGACTGGAACACCCGTGATGGGTAACCGAGGACTAGAGACCCGGCAGAGCAAGCGGTCCCAGCTCCATTCACAGGCTCCGGGTCCAGGACCGCCATCAACTCAACCGCATCATGGCAACAACGGCGTGGTGACCAGTGCTCATCCCATCACTGTGGGTGCGCTCGATGTGATGAATGTCAAGCAGGTGGTGAACCGCTACGGAACACTACCAAAGGGTGCCAGAATCGGTGCCTATCTGGACAGTCTTGAGGATAGCAGTGAGGCTGCTCCTGCTCTTCCGGCAACTGCTCCTTCTCTGCCACCAGCCAATGGACACGCCACGCCTCCGGCTGCCAGACTAAATCCGAAGGCCAGCCCCATTCCGCCACAGCAAATGATCAGGAGCAACTCGTCGGGCGGAGTGACCATGCAAAACAATGCGGCTGCCAGCTTAAACAAGCTTCAGCGTCATCGCACCACTACCGAAGGCACCATGATGACGTTCTCCTCCTTCCGGGCGGGCGGTTCCAGTAGCTCACCCAAGCGGAGTGCCTCGGGAGTGGCTTCAGGAGTCCAGCCAGCTCTGGCCAACCTTGAGTTTCCACCGCCTCCGTTGGACTTGCCTCCGCCGCCCGAGGAATTCGAAGGCGGACCACCACCTCCTCCACCGGCGCCGGAGAGCGCTGTGCAGGCCATCCAGCAGCACTTGCATGCCCAGCTGCCAAACAATGGCAACATTAGCAATGGAAACGGAACAAACAACAACGACAGCAGCCACAACGATGTTAGCAACATAGCTCCCAGTGTGGAGGAGGCCAGCTCCAGATTCGGTGTGTCTCTGAGAAAACGCGAGCCCTCCACCGACTCCTGCAGCTCGCTGGGCAGTCCACCCGAGGATCTCAAGGAAAAGCTAATCACCGAAATCAAGGCGGCCGGCAAGGATACTGCTCCGGCCTCACATCTGGCCAACGGCTCGGGCATCGCTGTCGTGGACCCCGTCTCCCTGCTTGTCACCGAACTAGCCGAGAGCATGAACCTGCCAAAGCCGCCGCCGCAGCAGCAGCAAAAGCTGACCAACGGCAATAGTACTGGGTCCGGATTCAAGGCTCAGCTGAAGAAAGTCGAGCCCAAAAAGATGAGCGCGCCAATGCCCAAGGCGGAGCCGGCAAATACCATCATCGACTTCAAGGCTCATCTGCGCCGGGTGGACAAGGAAAAGGAGCCAGCAACTCCAGCTCCAGCTCCAGCTACTGTAGCCGTAGCCAACAATGCCAACTGCAATACAACGGGCACTTTGAACCGGAAGGAGGACGGCAGCAAGAAGTTCTCGCAGGCCATGCAAAAGACTGAAATCAAAATCGACGTAACAAACTCGAATGTGGAGGCGGATGCGGGAGCAGCGGGCGAGGGCGATCTCGGCAAGCGGCGAAGCACAGGTAGTATTAATAGCTTAAAGAAACTGTGGGAGCAGCAGCCACCGGCGCCGGATTATGCCACCAGCACGATCCTCCAGCAACAGCCGTCGGTGGTAAACGGAGGCGGAACACCAAATGCCCAACTGTCTCCCAAGTATGGCATGAAATCGGGGGCCATCAATACGGTTGGCACTCTTCCAGCCAAACTGGGCAACAAGCAGCCACCGGCTGCCCCTCCACCACCGCCCCCGAACTGCACCACCTCCAACTCCTCCACCACATCCATTAGCACCTCTAGTAGAGATTGCACCAGCAGGCAGCAGGCCAGCAGCACAATAAAAACCTCTCATTCAACGCAACTCTTCACAGATGACGAGGAGCAGTCGCACACGGAGGGCCTGGGATCGGGAGGCCAAGGATCAGCAGACATGACCCAGTCGCTGTACGAGCAGAAGCCACAGATCCAGCAAAAGCCAGCGGTGCCGCACAAGCCAACAAAGCTAACCATCTACGCCACGCCTATTGCCAAACTGACCGAACCAGCCAGCTCCGCCAGCTCCACACAGATATCACGGGAGAGCATTCTGGAGCTGGTTGGCCTGCTAGAGGGCTCGCTCAAGCACCCGGTGAATGCCATCGCTGGATCTCAGTGGCTGCAGCTGAGTGACAAGCTCAACATCCTGCACAATTCGTGCGTGATCTTCGCGGAGAACGGAGCGATGCCGCCGCACTCCAAGTTCCAGTTCCGGGAGCTGGTCACGCGCGTGGAAGCACAGTCGCAGCACTTGCGCTCCGCCGGCAGCAAGAACGTCCAGGACAACGAGCGCCTGGTGGCCGAAGTCGGTCAGTCGCTGCGTCAGATCTCCAATGCGCTTAACAGGTAAATGATAAGACGGGGGATGGACGCGCCCGACCAACATCAGGGCATCTGGCTGGATGCCGAGGGTAACTTCATTAAGCGCAAGTGATCGGGCCCCAATTTGTAGACCCAATCGTCCAACCACACCATCCCCCGTGGAAGCGGAACTGGAAACGGAAATGGAAGCAAAGATAGCAGGCCGGAAACAGGAGGAGCAGAAACAGGAAACGAAAATTCAAGCCCAGCGAAGAAGAAATGACAACTACATTAGCAATAGCAGCAACTAAAATCGGAGGAGGACACCTATGTATCGTACTTGGTAGCGTGTAGTAGTAGCTTCTATTATATATACCCATATATATCTAGTCAGATCTGTGCAGAGCCCCGACGAACGCTTCCAGAAAACCAAGAAATTAGAAAACCGAAAAC
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0000017:FBtr0075357:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.867 A=NA C2=0.841
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF089195=F_actin_bind=WD(100=13.2)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0303169
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0075116, FBpp0111702, FBpp0303167, FBpp0303168, FBpp0311523
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:
TTTCATCGACGACCTCAGCAC
R:
GTTGAGTTGATGGCGGTCCTG
Band lengths:
353-1606
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)