GgaINT0039023 @ galGal4
Intron Retention
Gene
ENSGALG00000002803 | MTA1
Description
metastasis-associated protein MTA1 [Source:RefSeq peptide;Acc:NP_001012971]
Coordinates
chr8:4033555-4035582:-
Coord C1 exon
chr8:4035480-4035582
Coord A exon
chr8:4033655-4035479
Coord C2 exon
chr8:4033555-4033654
Length
1825 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGA
5' ss Score
10.65
3' ss Seq
TCCGTTGTTATTCCTTTCAGGTC
3' ss Score
11.62
Exon sequences
Seq C1 exon
GTGAGGATGATGGAAGAGATCAGTCAAAACTTGAAACAAAAGTTTGGGAAGCCTTTAACCCGCTAGTAGACAAGCAGATAGACCAGTTCTTGGTGGTAGCACG
Seq A exon
GTAAGAGCAATTTACCACTTCTTTGAATAAGATTTTATTAACTCATCTTTTCTAAGCACTTCATTTTTTGTGTGTGTGTGTTCTTTTTGCTTTACTGGTTTGAGTGCTGGCTCGGTTGCTTGACTCGTGTTTCATTTCATCTCACTGCTGGTGATTATGCCATCCAGGAAACTGTCACCTTCAGCTTTGTATTGGTTCAGCAGGTCGTGATAAACTTGCATATGGTGTTCTTTCTCTTGGCCTCCAGCATTGTGGGTCAACGGGAATAGGAGACGTTACTTTTGGAGCAGCCCTTGTACTTAAACAGATGCACACAGGGAAATGGCTGAAAGCAGGGAGAAGATAATCTCTACCGGTGATGCAGTAGAAGAGATGGAGAAAGCTGGAATATCTCCAGCAGAGGATTCCTGCTGCCTATGGGACCCTTCAACAAAGAGCTCATTGGATGGGCTGACTTCCAGCAGCACTGATTCACAGTGGCACTCAGCCACGCGTTGCTGTGGTCTTGGTGTCAGGAGCACTCAGTAGGAAACCAGAGGGTGGAAGTGCCTCGTTGATGGGAGTTTTGCATGTGGGTTGGTTTAGAGTGACCACAGAGCTGCTCTGTGATGGCAGTTTCCACCTTGTGTAGGCTTTTTGTTTGTGAAGCTGCTTCTAGCAGTTCTGACCGTTTTCTGCTGCCTGCTTGGCTTGCCAATAGAGCCAGGTGAGGCTGCCTGCTGGAAAAAGTCCCTGAAAAGATCAGTATAAAGAGTGCTTCTACCCAGAATCAGCAAAGTTGATCCAATTTCTAGTTAGGCATCACAAAAAAATGAAGTATCAGTTCTGCAAGCAGGGGAGCTGTGAAGCAGGGACAAGGATGAGTGAGTAGGAGGCTGGGAGAGGGTGAAGTGTGAATGCACCAAAGCCTGGCAGGGGTGGCTTTGGCTTCTGACCAAAATCAGATATTTGATGGATTACTGCCTAAGTATTTACCTTTTTTTCTTCTATGCGCTCAGCTAGTCAACCAGTCTGGGGAAATGAACAGAGTGAGGGGGTGTTGGGGAGAAGAATTGATTTTTTTTTTATTGTTGTTGTAATTTCTCAGAGTTCAGCTCCAGTTCACTGTGCGGGAACGTTCCCAACTCTGTGCTGCAACAGCCAGCCAGGGGAGTGGGAATTACTGGAACCAATGTTCCTGTTGTAGAGTTCTCCAGCTCATTTCTTTAGGGGTAAAATGAGGAGCCTGGGAATTGTGGCCTTGCAAACAGGAGTGGCTGGCATTGGGAACCATTTGAGAGCTGCTATCCTTTTACACAGTCTATTTATACTTTAAATACACTTTTTAATATGTTACAGTACATATAATAAATACGTGTTTACAGCATTATACTAGGTCATACTTTTTCTGCAGCTTTTGAGAATGATTGTTACTGCATTTTTTTTCCTGACATGTTTTGGCATCTGTTGTACCTTTGGACAGTGCAGCACTGCTCAGGCTGCTGTTCATAAAGGTCACTTGTGATCGCTCTCTTTTAAAGCTTAATTCAAAAGTTTATGTCGAGAGGCAGAGGATGAGATGGTTCAAAACAGCCCATTTGTGATCTTGGAGTGCTCCACTGTTCTCCTGCCCAAGCCTATTTGGTCACATAAACTGTGCACAGTCAAGCATTCGTAATAACAAACCACATCCGAAGAGAACGGTCCCTGGCTCAGAAGTAGTGCCAAGACATGTAATCTTGTTACTGAGAAGTGAAGTCTGCTGATCTCAAAAAATGTTGGTTGGGTGTTGATGTTTATGCTCGCTCTGCATGCAGAGTTAACGCTCCGTTGTTATTCCTTTCAG
Seq C2 exon
GTCCGTTGGTACATTTGCCCGAGCACTAGATTGCAGTAGTTCTGTCAGACAGCCAAGTTTGCACATGAGTGCTGCAGCAGCCTCTAGGGACATCACACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002803:ENSGALT00000004434:8
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:
PF0144819=ELM2=FE(61.8=100)
A:
NA
C2:
PF0144819=ELM2=PD(5.5=8.8)
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:
TGAGGATGATGGAAGAGATCAGTCA
R:
GTGATGTCCCTAGAGGCTGCT
Band lengths:
198-2023
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]