DmeINT0030846 @ dm6
Intron Retention
Gene
FBgn0020309 | crol
Description
The gene crooked legs is referred to in FlyBase by the symbol Dmelcrol (CG14938, FBgn0020309). It is a protein_coding_gene from Dmel. It has 10 annotated transcripts and 10 polypeptides (7 unique). Gene sequence location is 2L:11794327..11809438. Its molecular function is described by: nucleic acid binding. It is involved in the biological process described with 8 unique terms, many of which group under: imaginal disc-derived appendage development; regulation of cell communication; signal transduction; instar larval or pupal morphogenesis; cell adhesion. 61 alleles are reported. The phenotypes of these alleles manifest in: external sensillum; external sensory organ; mechanosensory sensory organ; embryonic/larval peripheral nervous system; pupa. The phenotypic classes of alleles include: increased mortality; phenotype; some die during P-stage; viable. 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 06-18 hour embryonic stages, during early pupal stages.
Coordinates
chr2L:11800155-11803674:-
Coord C1 exon
chr2L:11802287-11803674
Coord A exon
chr2L:11800323-11802286
Coord C2 exon
chr2L:11800155-11800322
Length
1964 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
ACCCTCTCCCACATATCCAGGTC
3' ss Score
8.35
Exon sequences
Seq C1 exon
CCACGCTCAGCGAAAGCAGTCGACAGCAGCAACAACAGCAATATGTAGGCGCTCCTCAGCAGCAACACATGAAATACAACAGCCAAGAACAGCAGCAACATCAACAACAACTACTCCCAACAAACCAATAACTCCCAAAACAAAAAAAAAACAACACAACAACAAGAACATCATTAGGATATAGGAATCAGGGAACGAGCAACGCCACAACGATCGCCCGGATCTGGACACAAGAATGCAGCACGTGAGCGCTGCCAGCTCGGTGCCATCAGTAGTAACTCCTGTTGTGACCACTGGTGGGACAACGATCACATTGGGCGGCCCACCACCGCTCCCTAAATCCGAGCACAAAGAGGATGGCAAGCCGCCGCACGGCATCGAAATGTACAAGGTGAACATTGAGGACATTTCGCAGCTCTTCACCTACCACGAGGTCTTTGGCAAAATCCACGGCGATGTGGTCAATCATCAATTAGCAGCGGCCCACGGCGGCCAGTTGCCACCACCTCCTCCGCTGCCGCCGCAGGTTACCAGTCATGCGGCGAGTGCAGCGGCAGCCGCAGCAGCGGCGTCCACGAATAATGCCGCCGTTGCAGCGGTAATGGCATCAGCGAATGCAGCAGCGGCCGCGGCGGCAGCTGCATCGGCGGGGGGAGGACTACCGCCGGCCACCAGCGGCAATGGGGGCCAGCAGGTGACGGTGACGACGACCAGCAGCTCGACTAGCAGCGGCGGGAGCACCACCAGTGGGGGCACCACGACCACGGCGGGTGAGTTGCTTATGCCTAAAATGGAGGGCGGAATTCATGGCGTGGACGGCAGCGGCAATGGCGGCAATGGTGGCGGACAAAACGTGGCGCTGGCGCCAGACGGTACGCCCATTGCGACGGGGACGCACGTCTGCGACATCTGCGGCAAGATGTTCCAGTTCCGGTACCAGCTGATCGTGCACCGGCGCTACCACAGCGAACGGAAGCCGTTCATGTGCCAGGTGTGCGGCCAGGGGTTCACCACGTCGCAGGATTTGACGCGCCACGGCAAGATCCATATTGGCGGGCCCATGTTCACCTGCATCGTGTGCTTCAATGTGTTCGCGAACAATACGAGCCTGGAGCGGCACATGAAACGGCACTCGACGGACAAACCGTTCGCCTGCACCATTTGCCAAAAGACCTTTGCCCGCAAAGAGCATCTGGACAATCACTTCCGCTCGCACACGGGCGAAACGCCCTTCCGTTGCCAGTACTGCGCCAAGACGTTCACGCGCAAGGAGCACATGGTCAACCATGTGCGCAAACACACGGGTGAGACGCCACATCGTTGCGATATTTGTAAGAAGTCCTTTACGCGCAAGGAACACTATGTTAACCACTACATGTGGCACACTG
Seq A exon
GTGAGTGTGATTGATTGGTGGGGGCGGACAATGCGAGCGGCGAGCGCCAAAACAAAAAGACAGATCAGATTCTCTCAGAACTAAATACCGAAAAAAAAAAAATATCCAAGACCAACTCCAGTCAGACCAAATTCTATCCATAGAGTACAAGAACAACAACAGCCATCACCACATCACACCAACCAACCAAACCAACCAAGAACCAAATCAAAAATTCAACCAACCAACCAAACCAATCAAAAAGAATTGACAATAAGCACCGCAAAAAAAAATATATATAAACTTCATCGTGCGTCCTACGTCTTCTTCCACCCACTCTCTCATACACTTCTATCTCGCTCATCGCTTGTGCTTCTTCTACCCGCCAACTCCCACAGTCCCGCCCACTGTACTCACACAGAGAGAAAAACATAAACTGAAATTGGTCATTAACTTTGGTACCTTTCCTGGTCAAATAGCTATACTTTCTTATCACCAACTTACTTAGAAAGTGCCGGAATTCAAAATTCATTTCGTTTAAAACATCTTACAAATGTTTTCCAAATTCCATGATATATAATCACACTAAAACCGCATGAATTTCATTTTAAGCTTTATTTCTGAAATGACAACATTCTAAGGATAGTATTACAAATCAGTTCAGAAACAAAACAACTAATTCTGCCTAAGGGTTTCATAAATTCATTAATTGCATATATATTATAGAACTCAAGCTAAGGTTCTTAATTCTCTAGAACTTTTAGGTATAGATATAGTTCTGATTTTTTTCTCTGTGTCAACTAACGCTTCATGCGAGCGAATCTCCAAAGAAGTGGAGAACGCTCCTCGCCTAATCCCGCTACAAAATTAAAAGAAAACACGCTCACTCGCTCATACCGCTCCATTTCCCCCCAACCATGATCTCTGCATCACACATCCCCAGCTTCACCAAGTCTTAATCATGCTCACATGCACCACCAATCCAAACACTTCATCCAGTGCTCGCTCCACTCCATCACTCCAAGTCCACGTCCAATCCTTTACTCCCGTTTCGATTCGATATCTAATGCCTGTGCAACTTTGTCTACGCTCTCTCTGCTGTCGAACAGGGTGTCCAAAGCAAAGCAAAGAAAAGTCAAGAAAGTAAAGAAAAGCTAAGAAAAGTTCGTTGTTGCTGCTTGTCGATTGCCAACGTCTCTGTGTAACTGCGACATTTCACACTCGATCACACGAAAGCAATTGGATCACACACAACACAAGAAACACGCACACACAAACACACCAATCAGCTCACCTGCATAAATATCTGCTAGGTAGGCTTAGATACCTACCTTAAACTTTAGCTCTTTGGCGAAACTTTCTTCTGGAACTGCACGTTCCGCACAAAAAAAAAAAAACGTAACAAGAACAGCATCCTGAGGATCAGCATTGAGTAGAAGCAGAGTTGACAGGCACACACAAAACAAGACACACATCCAATGAACATCATCCACACCACATACAATCCACAACACATCTGACACCACCACGCCCACGTCCATATGCCCGAGCCAGCAGCCTCCGTTCGCTTCGTTCGTTCGAAACCACAACAACGCAAGCCACGGCCAGTTTCACACCAAACAGAAAAAAAAACGAAGAAAAGATTTTAATACGAAAGAAATAAACCCACCCACCCACGCAGCCACCCCATCACTAAACAACTAAAAAAAAAAAAAAAGACAACAAAAAAATAAGACTGAGCGGCGGTGCGCGCGAGGATGGGTCGGGGGATCTGAAATTTTGTTTTTTCTCCGATTCGCCAACATTTCTCCAATGGGCTGCCGCAAGGATCCCTCTTGGAGAAATGACCGCTGATTCGAGTTAAGCGAGAAAAAAGAAAATGCTTGCGCTTACGAATGCGATTTTGTCTTGTCGAACGAGATCAAACGCCATTCCCTATATACAACAATTCCGTTCTGTTCTGCTACCCTCTCCCACATATCCAG
Seq C2 exon
GTCAAACGCCGCACCAGTGCGATGTCTGCGGCAAGAAATATACGCGCAAGGAGCACCTAGCCAATCATATGCGATCCCATACCAACGAGACGCCGTTCCGTTGCGAGATCTGCGGCAAGAGCTTTAGCCGCAAGGAGCACTTCACCAATCACATACTTTGGCATACAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0020309:FBtr0080261:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.445 A=NA C2=0.135
Domain overlap (PFAM):
C1:
PF0009621=zf-C2H2=WD(100=6.0),PF0009621=zf-C2H2=WD(100=6.0),PF134651=zf-H2C2_2=WD(100=6.8),PF0274810=PyrI_C=WD(100=9.6),PF134651=zf-H2C2_2=WD(100=6.8),PF134651=zf-H2C2_2=WD(100=6.8),PF0013017=C1_1=PU(67.3=9.1),PF134651=zf-H2C2_2=PU(38.5=2.6)
A:
NA
C2:
PF0013017=C1_1=PD(30.8=28.1),PF134651=zf-H2C2_2=PD(57.7=26.3),PF134651=zf-H2C2_2=WD(100=45.6),PF134651=zf-H2C2_2=PU(38.5=17.5)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0079845
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0079846, FBpp0079847, FBpp0293786, FBpp0307448, FBpp0307450, FBpp0307451
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:
CCGCAAAGAGCATCTGGACAA
R:
TCCTTGCGGCTAAAGCTCTTG
Band lengths:
345-2309
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)