DmeINT0008690 @ dm6
Intron Retention
Gene
FBgn0052103 | CG32103
Description
The gene Short Calcium-binding Mitochondrial Carrier is referred to in FlyBase by the symbol DmelSCaMC (CG32103, FBgn0052103). It is a protein_coding_gene from Dmel. It has 5 annotated transcripts and 5 polypeptides (3 unique). Gene sequence location is 3L:12402295..12414842. Its molecular function is described by: ATP transmembrane transporter activity; calcium ion binding. It is involved in the biological process described with: transmembrane transport. 15 alleles are reported. No phenotypic data is available. The phenotypic classes of alleles include: viable; male semi-fertile; male sterile. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of moderate expression. Peak expression observed during late pupal stages.
Coordinates
chr3L:12413448-12414842:-
Coord C1 exon
chr3L:12414706-12414842
Coord A exon
chr3L:12414087-12414705
Coord C2 exon
chr3L:12413448-12414086
Length
619 bp
Sequences
Splice sites
5' ss Seq
CCAGTAGGT
5' ss Score
5.41
3' ss Seq
ACACTCGATACCTCTTTCAGACG
3' ss Score
5.95
Exon sequences
Seq C1 exon
AGTATATCTAGATAAACGTTCGTGGTCACACTGGCAAACCCAAAAAATTAAAATTGAAGAGTTCTGCGTGAATCGCTTTAAGCCACAAAGTCGCCGAAATAGCGTAAAAGCAGACGAACTCTTAAATAGCTCGACCA
Seq A exon
GTAGGTAGTGACCACAGAAAAAGTGGGAAATGCAATTGAAGCTTGCCACTTTCTTTTGCATATCCACATTCCTTTCGCCTGCATGTGAGCGTGTGTGTGTGTGTGTGCATGAAAATCGAGTGCAGAATAATTTTTGCCAAATTGGCAACAATTTGCAAGCGTTTCGAGAGAAATTTGAGTCACACCTGTCTGGAAAATGGGCGGAGAATTCAGAAAAGAATGTAGAAAGTGTGTGAGAGCGTGAAGAATTCTTCGGTTAAAGCTACGCTTTGCAAAGTAGAAAGTTCGAGTTGCTGGGGGAAAGTCTCCCTTTTCCCAACACTCCCCCCCTCTACCACGACTTTTGGAGACATGTGCGTGCGTGTGCGTGAAGCTGTGGGTTTTTCAAGGTTTTCCGGAAAATCGCTGGCCTTCAAAATTAACTGCGAAAATCAATGGGATGTGGGTTGTACGCGGGATCCTGAAAATTGGCACCTACAATGTACATATGTAGTTCTCCAGCCAAGAAGAGGATGACTTCATCGCGGGGAAATTCGATACGTTGAGCTGTTTTATTTATCTTTCGCCCAGACATAACATTATAAACTAATGTGTATACAACACTCGATACCTCTTTCAG
Seq C2 exon
ACGACTGTTTTTCCATTTGACTTGCCAAGTAGTGCAAAATGAGCCGGCCATAAGAGCAGAGCAGCTGATAGCCCAACACGTAATCCCCCAGAGAATCGGAAACCGAGCAAACCCAGAGAAATCCTTCAGCTGCCAGTTAAAGAACAGAAAACTCAAGGTAAACTGTAAACACGAGTGTGGAGAATGGTCAGAAAGCAAGTTGGAATCGAAAACAGTGCATCCTTAGCAGTAAGCAAGCAGCAGGATCAAAAGGAGCAGGACTATAAGCCAGAGGATCAAAAGCAACAGCACATCGACATCGACTTGACGCCCGATCCGGCCAGCAACTTCAACTTCGCCCAGCAGGCGCAGGCCAACTACTCCGCCCGCACGCTAGCCGCCAGCTATGAGCACGGCCAAAATCTCGGCCTGCAACATGCCCATCTTGCCACCAGCAGCACTACCAACACGCCCTTGGCCTATGATCTGCACGAGGTCGCCAGCTCCGGCTCCATCCTGCCCACCGAGATCCCCATCGAGGACGAGGAGCGGCTGGAGCGCATCTTCAACAAGCTGGACCGCGATGGCGACGGCAGGATCGATATCCACGACCTGTCAGCGGCACTGCACGAGTTCGGGTTGTCGAGCGTTTACGCGGAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0052103:FBtr0075982:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.434
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF134991=EF-hand_7=PU(60.0=23.7)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0075714, FBpp0304400
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:
GGTCACACTGGCAAACCCAAA
R:
CCTGCTGCTTGCTTACTGCTA
Band lengths:
358-977
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)