DmeINT0021945 @ dm6
Intron Retention
Gene
FBgn0010395 | Itgbetanu
Description
The gene Integrin betanu subunit is referred to in FlyBase by the symbol DmelItgbn (CG1762, FBgn0010395). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (1 unique). Gene sequence location is 2L:21053033..21058044. Its molecular function is described by: protein heterodimerization activity; integrin binding. It is involved in the biological process described with 10 unique terms, many of which group under: cell adhesion; biological adhesion; cellular process; transport; localization. 18 alleles are reported. The phenotypes of these alleles manifest in: organ system subdivision; embryonic/larval peripheral nervous system; larva; hemocyte; eo-type sensillum. The phenotypic classes of alleles include: visible; phenotype; fertile; flight defective. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of very low expression. Peak expression observed within 12-18 embryonic stages.
Coordinates
chr2L:21055803-21058044:+
Coord C1 exon
chr2L:21055803-21055998
Coord A exon
chr2L:21055999-21056104
Coord C2 exon
chr2L:21056105-21058044
Length
106 bp
Sequences
Splice sites
5' ss Seq
TATGTAAGA
5' ss Score
3.54
3' ss Seq
TCATTCTCTTTCGCTTTTAGACA
3' ss Score
10.61
Exon sequences
Seq C1 exon
CTATGAGAGTTTGATTAAACGCACTCAGTTTGCCGATAACAGCCCGGATTTTATTGACATGGCTTACTATACGGATTGCGGTGGTCAGTTTCCCAGCTTACAAAAGCGGAATTACTGCAATAACGTCACTCTGGGCAAGCAGATTGATTTCTACGTGGACGTCACTCTCAAGAAATATCCCGATAATCAGGTTTAT
Seq A exon
GTAAGACAAACAATACTAAGTGGAAAACAACAATTTAATTCAAGGATAATCTTTTGGATATATGTTTGCACAGTTCACTTACCACTTCATTCTCTTTCGCTTTTAG
Seq C2 exon
ACACACAAAATCCGGGTGGAGGAAACCTCCTTGAGCGAGTTCATGGATTTGGATGTTGAGCTTCAGCGGCCGTGTCCCTGTCAGGAAACACCAGATCCGGAAAACGAGGAAGGACGTTTCCTGTGCGATTATAAGGGCTATTTGTACTGCGGAATGTGCGAATGCGATGAGGGGTGGACTGGGACCTATTGCAACTGTCCCACAGATGCCACAAATGTCACCAGCAATGAAGCTCTGCTCCAGAAATGCCGTCAACCGTTTTCGGATAAATCCACCTCCGAATTGGTTTGCTCCAATCACGGGGACTGTGACTGCGGAACTTGCTTGTGTGATCCTGGATATACGGGTCCTTTTTGCGAGTGTCGCGAATGCCTGGACTGCGATGAAAAGCTGGCTGATTGTTTCTGCGGCCAATGCGTTTGCAAATACGGATGGTCGGGTAGCAAATGCAACTGCGATGGGGATACCGATGCCTGTGTGGGACCCACGGGCGAAATATGCTCGGAAAGAGGCACCTGCCAGTGCGAGGAGTGCCAGTGTGAGGAGCCGTATTTGGGTAAATTCTGTGAAATCGATCCAGAGAAGGACAACAAACTTTGTTTGTTCTACGAGCCCTGTGTCACATGTCTGATCGAGCAAAAACAGGGAATGGGCGTCTGCGAAAACTTGACTGAAATATGCAGCAGTTTGGATAGACAAGAAACCTATCCATACAACTTTGTCCACGAGCTGGATCCTGAGCAGGATCAATGCTTGGTACGACTGGTGAACAAACATGGCATCCAATGCGACAGCTTCTTCGTCTATCAGGTCATCGACCACTCAAACTTCTTGACCATCCAGGCAGTTGATTGCGAGCCCCCGGATTACGTGGCTCTGGTGGGATATATATCGGCATTTACGCTGCTCATTGGACTTTTGATCATTTTCATAATTCTGTGGTACATTCGAGCTAAGGATGCCAGGGAATATGCCAAGTTTGAGGAAGATCAGAAGAATAGTGTCCGACAGGAGAATCCAATTTACAGGGATCCAGTGGGTAGATATGAAGTGCCCAAGGCGCTAAGTGTTAAGTATGATGAGAATCCTTTCGCAAGTTAACATGAAAAATGTTTTTTTTTTAAGATATTAGATTGTACTTTGACTTAAAATTTTCTTCAAAATTTGTGTATACCCGTTACTCGTAGAGTGAAATTATACACTAGATTCGCGTTGAAAAGTATGTAACCGGTAGAAGTAAGCGTTTCCGTTCATATTTTAGTTTTAGTTTATTTTCTTGATCACAATACATAGCCGAATTGATCTGGCCTTGTCTGTCCGTCCGTCCGTTTGTTTTTTTTTTTTTCTAATTTTGTTCCCATTTTCTGTCGGTATTCCAAAAAATCTCTCCTTCGCATTTTTACTTGATGAGTAATGGATAGCTGATATTCGGTTAACTCGACTATAGCATTCTCTCTTGTTTTTAAGCTATTGTAACTCAAGAATTACGAGTTCACGAAGACATTAATACAAATATAAATTTTAGGTGTTTATTAAAAAGTATTAGCCCCGTTCAGAAATAACATTCCAATTCCAAGACTGGTCACAACAATAGCACTATTAAGATCAATAATTTTATATAATATATTTAGAACATAAATTTGTTTTTTATACATAGAAATTATATGAATTAGTTCAAAAACTCGTGTATATCTACGCTAAATGAGCTAAAATTTATTACAGCTAAAAAACGAGTAAACGTATAACAAAGTTAGCTTTCAGTTTTCGTATTGGACAGCTCCTTTCAGCGATTGTATTCATATAAGTACAAAAATAATGGCTTAAGACATCGTTTACATTAATCCGCTTGGGGAGTATAGATGACTACTGGCAAATCGGAAATGCAAAACATTACCTTAACTTAAGAGGCATTACAAAAATACAATTCGATTAATTAAGGC
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0010395:FBtr0081461:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.005
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(15.4=100),PF135191=VWA_2=PD(1.7=6.1)
A:
NA
C2:
PF0036213=Integrin_beta=PD(6.1=7.1),PF126612=hEGF=WD(100=3.5),PF079748=EGF_2=WD(100=10.1),PF079748=EGF_2=WD(100=8.4),PF087256=Integrin_b_cyt=WD(100=10.9)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0080990
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0312322
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:
GCAATAACGTCACTCTGGGCA
R:
TTCGCACATTCCGCAGTACAA
Band lengths:
242-348
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)