DmeINT0022678 @ dm6
Intron Retention
Gene
FBgn0027951 | MTA1-like
Description
The gene Metastasis associated 1-like is referred to in FlyBase by the symbol DmelMTA1-like (CG2244, FBgn0027951). It is a protein_coding_gene from Dmel. It has 5 annotated transcripts and 5 polypeptides (4 unique). Gene sequence location is 3R:5638655..5648738. Its molecular function is described by 7 unique terms, many of which group under: binding; transcription coregulator activity; transcription regulator activity; protein binding; transcription corepressor activity. It is involved in the biological process described with: chromosome condensation; negative regulation of transcription by RNA polymerase II; heterochromatin organization involved in chromatin silencing; histone deacetylation. 17 alleles are reported. The phenotypes of these alleles manifest in: oocyte; chromosome; region; segmental subdivision of integument; cell. The phenotypic classes of alleles include: visible; partially lethal; lethal; viable; suppressor of variegation; fertile. 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 hour embryonic stages.
Coordinates
chr3R:5644163-5647215:-
Coord C1 exon
chr3R:5647054-5647215
Coord A exon
chr3R:5644271-5647053
Coord C2 exon
chr3R:5644163-5644270
Length
2783 bp
Sequences
Splice sites
5' ss Seq
AACGTGAGT
5' ss Score
9.54
3' ss Seq
AAAATAACGCATCGCATCAGTGG
3' ss Score
-0.55
Exon sequences
Seq C1 exon
ACTATGTTTACGTTGAGACAACGCCGAACAGTCCCTACTTAATACGACGCATCGAGGAGCTGAACAAAAACCAAACCGGCAATGTGGAAGCGAAGGTCATGTGCTTCTACCGCCGCCGGGATCTGCCCAATCCGCTCGTGCAATTGGCCGACAAACACCAAC
Seq A exon
GTGAGTAGAGAAACCCTGTTCCCTCGAAACCGCATCCATATCTTGCGTTACGTTACCTCTAAGTGTGTATATTTATTGTCAACAAAGTGAGGTTATGTTGCCAAGAGTCGTTGTCGTGGCCTTCAAACAAGTTAAGAGTTAAAACCTGACGACCAGATCTGCTAAGCACATGCCCACCACAAAACAACAACAAAATGAACCCGTAAGGGGCACCACTGTGTGCGCTGTGTCAAGGCATGTGGAAAGCGAAGCCACCCACCGAACCACCCAACCTCCCACAGTGCCACCCCATCCCGCAATCCTAGTCAAACTTCCTGAGCAACAAGAACCGCAATGACAACAACTGTGAGGGCGGAGCGAAAACGGATTTCGTCCAGCATCCGACTCATCCACATAAACAGGCAGTGGAACCTTCAAACAACCTGCCACATCAACTGGCAGTGTAACCACTCTACTTCGAACCAGAAGCACCATTGATCTACGTTCCAGTAGCGCAATTTGAATTATTCGTGTCGCAAATTAGAAAAAGCATTTAGCAAATAGTCTAAAAAGATATTGGTCATAGAAACTAGGTGTTTTGGGAACTGGTAATGAACATAAACACGCATCGTGGTGCGGAAATAGCCTGTAAATTATTAAGTTCAACCTTAGGCATACATATGTACATACGTTAAGGTGCCACCGGTTTGCTCTAATGATGCTCGACTGTAATGAGCTGGGCTGCACTATACTACCCGTAATGCGGTTGTTGCTGTTTTCGGTTGCTGCTAGGCGGCGCCGACGTCAATGTGAATGTGATACTTGGTTCGGCTGTAGGTAGACTACAGTAGTAGTCTGTCTACCTCTGAAAAGCTGCCACACATACCCATGCCCAACCCAACCCCAAACCCACTGACACTGCTGCTCTGTGTGCACGAAAATGTTCAAGTCAGAAGTTGGGATCTGGAGGGGATTGGAATGGAGCAGTGGAGTGGAGTGAAGCTATGGCGATGTGGCACACGCAGGAAGGCGCGCTTTGCATTTGTGTATACATACACACAGCGCCTTCATCCACTTCCTCTTCGCCGTTCCAAAAAACTCACAAAAACCATGCCCAATTGGGTTGAATTTTTGGCTTTGGCCACCCACTCGAATTCGATACGTGACCGTCGCGAAAATGCGTTTTCCGTGGGTCTGACCTGGCAGAGCAACCCACCCCAATCCACCACCCCATTCTACCTCCTACACTCCCACAAGACCAACAATGCCCATTAACACAGCCCCTTTCGGCCCCAACATCATCGGACCACTGTCATCTTGCTTTATTTTTAATATAAGTTATCCATTACGCTCCACGATCCAGTTTTTATTTGCGTGCGTCGCCTTTTCGCAGGCCACTCGCTAATCAGGCGCAGAAAACTAGCGTAAAAATATACATTTGAGGCACAAGTGTGCCGCCATTCCAACCCCAAGCTACGGACTTGATGCAAGTATCTTTGAAAGGTGGTTTTCCGAACTCCAGAAACACTTCAAAACCTTTAAAATAAAATGATTACTATATTTTATACTTCTGTTTTACTTTCTGTTAGTTTCTGTTCTGTTTGCCACTAGGAAAATGGTATTTTGTTAAGCTTAGAATGAAATATCTAAGTACTAGCCAGTACTTACGATCATTAGCATAACATTATATTTACTATTTTAATTATTGTTAAATGTGATAGTACATAGCTCACAGCCTAAAATAACCACTCTCAGCGGCTAATCACATTGTCAATAGCAGACCTTGAAGTTTGCCGGGAATTGGAAAGGGTATAGAAAGCAGATACGCTCGAATGGCAAACAAATCCCGCAGCGGCGCACCCACCCACTTGTGTGTCCTATCTATGGCCACCAAATAACGCCCAAGCCTTTACCCCTCCACCCACCACCCACCGCCATCCACCATCCTCCGCCCCTTTTTGATTGCTCTCGCTTCGTCTTCGAAACAAGCGCAAAATACAAATACACAAATACACGTACCCAGCTTCGGCTCTTTTCTGGGACTCAGGCCATGCACCCACGCCCGTGTGTCCGCCGAGGAGGTGTGGTGGTGCTGTCCACCGCCCACCTCACCTTCCTCCCCTTCCGCCCTTTGCGAAATGCCAAGCGTATATTTTTTAATCAGCCCAGCGAACTTCCAGGAAATTCATGAGGGTTACTTTCGGATTTCACAAAACACAAATTCCGGGAAAGCTGAGATGTATATTATATAGATAACGTTTAGATTCAAGTAGCGTCACTTTATTAAAATAGGGACATACATACATGTATGACCTTTCTTTGAATTCGCTTAAACATTTTCAATTGTATTGCTTGTATAAAAAAAAAATAATATTATTGATAATATATTTGAAGTATAGGAAAGTTGGACAAATTGTAAAACAACCAGGAATTTACTTTTTGCTTGAAGGGTTCTTTGCTCATCTTTTAAATTTGTGTATCCTAGGGAGTTGTTTGGTCTTTTGGTACATTAGTGCGATTTCATATCATTTATGCTTGGTGAGTCCTTATCGAGAAGGAATATATATGGTCGTCATATATTTGTTTGTTCGTATTACCATCCTGCATCCTTAGTTCCTTTGCCTATGACAACGACTCTTAAAAGATTATTTCTCACCTGTCTTCGCATTCAGGTGTCTCTTTCAAACTTATTAACTAAAATGCTTTAACTTATAAACATGATCTCTGTCGATGAACGCATTTCCCCAAAACGCACCAAATCATACTCCTAACCATCTTAAATCTAAAATAACGCATCGCATCAG
Seq C2 exon
TGGCCACCGCCGAGGACTCACCGTTGGCGACCAAGCTGAAGAAGACCTGGCTCCGCACACCCGTAAGCGAGGAGCAGGCGGCGCAGGCTGTGCTCGATCCCTCAATAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0027951:FBtr0078733:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.102 A=NA C2=0.986
Domain overlap (PFAM):
C1:
PF0142613=BAH=PU(93.7=80.8)
A:
NA
C2:
PF0142613=BAH=PD(9.0=16.2)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0303347
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0078382
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)