GgaINT0039031 @ galGal4
Intron Retention
Gene
ENSGALG00000002803 | MTA1
Description
metastasis-associated protein MTA1 [Source:RefSeq peptide;Acc:NP_001012971]
Coordinates
chr8:4015061-4016565:-
Coord C1 exon
chr8:4016476-4016565
Coord A exon
chr8:4015214-4016475
Coord C2 exon
chr8:4015061-4015213
Length
1262 bp
Sequences
Splice sites
5' ss Seq
TAGGTATTA
5' ss Score
4.71
3' ss Seq
TCCTTGCTGTTCCACAACAGAAT
3' ss Score
7.05
Exon sequences
Seq C1 exon
GCACAGCACGTTTACCAGAGGCATCAGAAAACCCATTGCTATTAAAGCAAGTGGTTCGAAAGCCTTTAGAAGCAGTACTCCGGTATTTAG
Seq A exon
GTATTAAAACAAACCAACAACAACAGAAAACAAACAAGCAAAGAGCCCTACAAGCTAATTCTGCCAACTGTTTGTTTTTCCATTTTATTCTGGATTTAGATGCTTGTTCTGGGTTCAAAAACAAACAAACAACAACAAAAGATGAGAACCTTCCCATGAACTTGTCCTTTTTCCTTCTCCTGTTTAATTTGACAGACCTACTTGCTCAGCAGCCCGTTGGGAGCTTGCTAAGCTCTATTCAGAGCTTTTCTTAAGCGAGGCAGAGGGAAACAGCCCTGTTTGCTGTGTTGTCTGATGCATGCGTGGACAGTTACCCTCTGCTCACACAGGCATGGATGTAATGTTTTGAGAACAACTGGTCAGTCTGTTCTTCCTATTTTCAGGCTGTCTGGAGGCAGCCCGACTGGGTCCACCAGGGAGTATTTCAGATGTTGCACAGTGCTGCTCAGGTTTAGCACAGCTTGTGAAGCACAGCTGCTGGCTGTTCCTGTACTGGAGCTAGACAATGGGGCGTATACATCTATTCATCTGAACTTTGTCTTTTTATTTTCTTTTTCTTTTTTTCGCTGTCTTCTTGATGACTCGGGCTTCTCATCAGCTGATCTCTGATGGAGTACTAAGAAGCTCTGTCATGACATAACAGCTCTGACTACAGATAGTTTTCCCTAGTCCTGTTGGTTGTTACAGATCCCCTTAAGCCGTGTCTTAGGCCATTACAGCAGTCTGACCACAGAAAGCTAGCTTGGACCACTGAACTCTGAAGGACTCTTTCTCAGCCGGAAGGTTGAGTTCAGGCTCGGTGTTCTTAATGGTGCTGCTCTGAATCCTCACTTCTTTGACCACTTAAAAATTGTATTTTTACAGACCTTGCTGAACTGGTAAAGTTGTGATTTGTGCAGAGTTTAGGGGTCCTACGTGACTGCCCAAATAACACAGAGCAGTCCAGAAATGATACCCGATTGCTGGAGAATAGCATTTTGGAAATATATACAAGTGTTCTTGTAAGCAACTCTTATTTTAAGATGATAACATGAAACAGTGGATGTTATGACATCAGCTTTAATATATTTGATAGAAGTGAATTCCTAAATGTAATAAAAATGATTTATGTAAACAGCAATCTTCAGTCAAGATTACTGGTGGAGGTAACCTTTGTGTAAGGGAAGATATATTTGTTGCCCTTGAAAGTTTGCAGATTGCTTCCAGCTCTGTAACTTCAGTATCTTCATTAATACAAGCAACTCCTTGCTGTTCCACAACAG
Seq C2 exon
AATCTCATCCGTGTCCTCCGAAACCAGACCCTGCAAAGAGCTTATCCAGTTCTCTCAACAATCTGACTCCTGCTAAGTTTACACCTGTCATTAATAATGGATCCCCAACTATACTGGGAAAAAGAAGTTATGAACAACACAATGGAATGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002803:ENSGALT00000004434:16
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:
NO
A:
NA
C2:
NO
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:
CAGCACGTTTACCAGAGGCAT
R:
CATCCATTCCATTGTGTTGTTCA
Band lengths:
240-1502
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]