HsaALTA0005407-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000122085 | MTERFD2
Description
MTERF domain containing 2 [Source:HGNC Symbol;Acc:28785]
Coordinates
chr2:242033821-242036842:-
Coord C1 exon
chr2:242036658-242036842
Coord A exon
chr2:242033845-242033847
Coord C2 exon
chr2:242033821-242033844
Length
3 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
GGTGCTTTTGTTTTCTCCAGCAG
3' ss Score
7.45
Exon sequences
Seq C1 exon
GGAAATTAAAGAGGGTGCTTTACTGTTGCCCTGAAATTTTCACCATGCGCCAGCAGGACATTAACGACACTGTCAGGCTTCTCAAGGAGAAGTGCCTTTTCACGGTACAGCAAGTCACCAAGATTTTGCACAGTTGCCCCTCTGTTCTTCGAGAGGACCTGGGTCAACTGGAATACAAGTTTCAG
Seq A exon
CAG
Seq C2 exon
CCTCGTCTTACAGCGTGACTGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000122085-7-12,7-11-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF025369=mTERF=PU(40.0=97.9)
A:
NA
C2:
PF025369=mTERF=PD(20.7=43.4)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACGGTACAGCAAGTCACCAA
R:
CAGTCACGCTGTAAGACGAGG
Band lengths:
106-109
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- 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)