GgaINT0039022 @ galGal4
Intron Retention
Gene
ENSGALG00000002803 | MTA1
Description
metastasis-associated protein MTA1 [Source:RefSeq peptide;Acc:NP_001012971]
Coordinates
chr8:4035480-4037215:-
Coord C1 exon
chr8:4037098-4037215
Coord A exon
chr8:4035583-4037097
Coord C2 exon
chr8:4035480-4035582
Length
1515 bp
Sequences
Splice sites
5' ss Seq
AGGGTAATT
5' ss Score
6.62
3' ss Seq
CTAACTTGTTTTTCAACCAGGTG
3' ss Score
8.97
Exon sequences
Seq C1 exon
GATTTCTTCTTCTATTCACTAGTATATGATCCTCAACAAAAGACTCTACTCGCTGATAAAGGAGAAATTCGAGTTGGAAACAGATACCAGGCAGATATAACGGACTTATTAAAAGAGG
Seq A exon
GTAATTTCCATAATTTAAGTTGTCAGGAGGCCATGTGGAATGCAGCCACTTCTATGTATGTAGCCTGTGTGGGAGACAGAGGTTCCTACCACCATGTCAAGTGTGCACCACTGGCTTGGTTTGTTAGGGACTGAAGCAGTTGCCCACTGCATGCAATTAGTTGTGTCTCAAAATAGGCTTTAAGCGGGCATTTGTCCAAATCATAAAAGTTGTTGAAACAAATTGAATTAATTGGCTCTCTCAGAGCTTGCACTCATTTTAAGAGATTTCAGAATTTTCATGGGAAGCACAGATTTCCATCACATCTGTATAACCTTTGTGTTTTTAATCAAGCCTCGCTTCCGTGTCAGAGCCACTCCCAAATTATTGCCAATTAAATGCTGTCTCCCCACATCAATTTGCCCATTATTACTGGATGCCTTTTCCTCAGAGCCCCCTGCCCGTCTGCTGCTGTTGGCTGCCAGCCTAGACTTCTCACCTGCAGAGCAGGCAGGAAGCGTTTGCTGCCTTGAGCACGTTGTGAGACCTCAGCCTGCCCTGCTTGTGAAGCACAAGGACGCATGCCCAGGAAAAGGGGCTGTTAGTTAACAGATACCAGCTTCACACTGGTCCTTTCACTGCAGTGGGTGGAAGAACTCTTGTCTGAGACCTGTGAAGGGCTCAGGCTGATCTGTTGATGTTCTCAGAGAGCTGGTGTTATGAGCCATGTTGGAAGGGGCTCTACCAAACTCCCCAGGCAGAGATGTGAAAGCAGTGAGGTACCTCGCTCTCTACTTCAGAGCTTTGCACGTGTGCAGATACTGTTAGGTTAATGTTAGAACAGGCCAACAAATTGGTCAGGTCTCTTGTTTAATTTGTCTGTGGTATTTATTCGGCAGCTGGGCTAGCCTCCTAAGTGAGGATGAACTAATTTGAAAGGCATTCTCTTCCTTCAGCCAGCCAACATGGGAATTCAGGGAAGGATAATCTCCAGATGTTTCAAAAGGGGTTTAAAAAAAGAAGAAAAAAAAAAAAGAGGCTCAGTAGCTCCTGTATTTTTTCCTGGATATTTTGGTTTTTATAGGGTTGGGAGAATAGAAGTAAGAGAACCTGATGCTATGATTTGCCCCTTAGAAAGCAGCTGGTGCAAACAGGACCAGCTACCCTTTGCCTGCTCAGAGCAGCTGGGAGTGTGCCTGCTTTCCTGGAACTGCTGCGAGGTGGAGGTGAAGGAGAGAGAATGTGGGGAGGAGGCTGGGGAGAGGAGGCTAGTTTGGGGAAGGACACGCTCTGTTTCCCATTGCTTGTGCCATTAGATACCAGCTCTTCAGCATCCGGTGGCCTAATTTGGATGAGTTGGTTTGCTGCATCTGTCAAGCTGAAATTGTCACAGCCAAAGGGGTGGATGAAATTTTCACTGTCGGGCAGAGTATCTGAGTTGATTTGGTGGTTAAATTATTGTGAGACACAAAATCAGGGAAGTAATTCCATTTCAAAACAGCCATGCTGAGCATTTCTAACTTGTTTTTCAACCAG
Seq C2 exon
GTGAGGATGATGGAAGAGATCAGTCAAAACTTGAAACAAAAGTTTGGGAAGCCTTTAACCCGCTAGTAGACAAGCAGATAGACCAGTTCTTGGTGGTAGCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002803:ENSGALT00000004434:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
PF0142613=BAH=PD(11.9=47.5),PF0144819=ELM2=PU(30.9=42.5)
A:
NA
C2:
PF0144819=ELM2=FE(61.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCAACAAAAGACTCTACTCGCT
R:
CGTGCTACCACCAAGAACTG
Band lengths:
191-1706
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]