RnoALTD0017804-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000028586 | Mcph1
Description
microcephalin 1 [Source:RGD Symbol;Acc:1560642]
Coordinates
chr16:76108454-76109902:-
Coord C1 exon
chr16:76109802-76109902
Coord A exon
chr16:76109348-76109801
Coord C2 exon
chr16:76108454-76108545
Length
454 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGG
5' ss Score
7.65
3' ss Seq
ACCTCCTGCTTATTTTTCAGATG
3' ss Score
11.64
Exon sequences
Seq C1 exon
CATGCGCACCGTTCTGCCTTCCTGCCAGCGCACGCTCGTTCCCGCGGCATCTGCTCTGGTCATGGAGGCCTCGGGAGGCGCTGGGGGCGCCTTTCTGAAAG
Seq A exon
GTGAGGAGACACGCCTAGTTAGGAGGAGGGCTGTGGACTAGTGCCCGGTGCCGGGGTGCCTGTCCAGGGCCATCGGGATCGGCTCACACCCCAGGTCCAATCACATCTTGTCTCCTTACACCCGAGGACCTCTCACATCCTAGGTGCCCTCACTCGGGATCCCGACCACCTGTGTGGACACTCCCCACGCATTCACCATGTGACCTTCACCGCCCCCGGAGTGCCTGCCACCGCACCTATGTGTTCCCCAACATCCCACCCCACCCCGGTGCCTGCTGAGCCCTGGAGAGCTAGCAGGAGGATCAGGTCCTATCTTAGCTTCCTGAGAGTCTCTCGCCTCTATGACCTGGGCAGTTGTGGGATTAGGAAAAATAATAGTTTCGTAATAATCTGATGGCCTCTTGAGGGCCCGACCTGAGGAGAGCTGACACGTGCCCAGAACATGGGACCCTAG
Seq C2 exon
ATGTTGTGGCCTATGTTGAAGTATGGTCTTCCAAAGGGACAGAGAATTACTCAAAGACGTTTACAAAGCAACTTGAGGATATGGGGGCAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028586-0-0,1-0-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF127382=PTCB-BRCT=PU(43.3=93.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
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:
GCGCACCGTTCTGCCTTC
R:
CGTTGCCCCCATATCCTCAAG
Band lengths:
190-644
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]