HsaINT0105859 @ hg19
Intron Retention
Gene
ENSG00000057935 | MTA3
Description
metastasis associated 1 family, member 3 [Source:HGNC Symbol;Acc:23784]
Coordinates
chr2:42795671-42797644:+
Coord C1 exon
chr2:42795671-42795913
Coord A exon
chr2:42795914-42797576
Coord C2 exon
chr2:42797577-42797644
Length
1663 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGC
5' ss Score
8.99
3' ss Seq
TGTACTTCCTTTAATTACAGATT
3' ss Score
8.46
Exon sequences
Seq C1 exon
CTAGCCTGGCGCTGGGGGCGGGCACCAGCCCCCACCCCTCGGCGTACCATCCCCTTTACTTCCCCCACCCCCTGTCCCCTCCCTTCCCTCCCTTCCCCCCCGTGGCGAGGCAGCAGCGACGGCGGCGGCGGCAGCGGCGGTCGCGGCTGAGGCTGAGGAGGAGGCGGCGGCGGCGGGCGGGGCTCGGCTCGGGCTCCGCGGGCGGGCGGGCGGACATGGCGGCCAACATGTACCGGGTCGGAG
Seq A exon
GTAGGCAGGCTCGGCCCGACCCGGCCCGTGTGGGAGCGGGTTCCGGGAGCGGGGGGCCGGGGCGAGTGCACGCCAACTGCCGGGAGCCAAGGGCGCCGGGGCTGAGGTCGCAGTGGGCTGGGGCGCCGGGGCCCGCAGAGGGGCCGGGACTCCCCACCCCCACCCATCCCTTCCCCTCCCCCCACGCGGGCTCGCGAGGGCCCGGGGCCACCTTCACCCTCGCACCCCGCCCAGTGTTTAGGGCCAGGCCTCTACTTGGGGGTACGAATTACCAGACACCCCCCTCCACGAAACCCTCATCGGGGTAGGGCCCGTCGAGCCCCCTGAGAAGGTGGCCTTCTTGCGTGGCTTCTAGGCGCTGGAGAGGATGAGGGGACATCCCCTCTCCTGCTTCTTCCCCACTCAGTGGGAGCCTGGGGTGGGGGTGGGGGTGGGGGCGGTGGGGGCCCAGCCAGGGGCCCAGCTGGACGGGCCTGTTTGCGTGCCGGGGCCCTGCACCTCCCCTTCCTCGGCCCCCCTCCTTTTCGTTTCTGGTCCAGTCCCCCACGAATGGGGCTTCGTGGGAGCTGGGAACCTCAGCCGGAGGTGGGGAGTTGAGCTCTGCCTGGACGTTTGCTCTGCTGCCTGCCTCCTTCCCAGTCTTCTGCGGAAGAGAGAAATAAGGTCAAACAAACTTTCTCCCTACTCACGACGCCCTCCTCCCTCTTTCCTGGTAAAATAATAATTCAGATAAGTGGCGTGTTTGTATGAGAGACTGGCTCTTCCTTCTCTGCTCATTAGCCGAGCTTCTGATGGATGGTGGTGGGAATGGCCTGGCTAAATGAGGCCACTTTGCAGAAGAGAGCGGCGAAAGAGCCACTAAGATAGACAATAACAATGCAGCTGCCTTTCGGATAAACACACAGTGGGAAGTTTCCAGCAAGCCTATTAGATGAGAGGAAAAGCCACACTTGAAAAATTTTATCCTTTTAGTTGAAAGCCTGCAGCAATTTCTTAATCACAAGACATTAAATGGATCTGGATTAAATATGGTAAAAGGGTAAAAAAGATGCTGATATCACCCCCAGAACACTTTGCCTCTTAGAAGTGATCCCCCGGCCCCCTTTTTTCCTCATCTTCCCAGGTAAAACTGTGGAAAAGTTTGTCAGCGTTCTTCCTCTTAACCTGTTCTGCTCATCTGATTTTTTTTTTTTTTTTTAAGTAGTGATTGAAATGTAGGTTGGACTGTGAAGCCTTTCTCCCTGCTCTGAATGTGTCTTAGGTCAATAGTTTTATGTGAGAAGCAGCCTGCAGGGCAAATTGTATTGGAGGAAAAAGATGTGGAAGTAGTTATAGTACAGAGGACACATGTTTAGCGTGCCCTGACTACACAGTGATAAGAGGTGTCTTTTTTGTTTATTATTAAAGAAATGACGTATTGGGACAGAAGTCTAGGAGAAACTGATAAAACATTAATTGAAATGAAAATGCCAAGAAAATAAAGGTCTGTGAATAGTAGGCACGTGAGAGGATATATTAAGGCTGCATTATTATGTTTGCTTTTACCAGTGAATGAATTATGAGCTTAATTTCAAACGTGAAATGCCTAACATAAAAAGTCTTGGATTGACAAATCTGAACTTTCTGTTAAAAAGATTAAGTTCTGTACTTCCTTTAATTACAG
Seq C2 exon
ATTATGTCTACTTTGAGAATTCCTCCAGCAACCCATACCTAATAAGAAGGATAGAAGAACTCAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000057935-MTA3:NM_020744:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (disopred):
C1=0.350 A=NA C2=0.036
Domain overlap (PFAM):
C1:
PF0142613=BAH=PU(4.2=60.0)
A:
NA
C2:
PF0142613=BAH=FE(34.4=100),PF029069=Fe_hyd_lg_C=PU(13.4=39.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCCCTCGGCGTACCATC
R:
TCCTTCTTATTAGGTATGGGTTGCTG
Band lengths:
262-1925
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)