RnoALTD0017805-2/3 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000028586 | Mcph1
Description
microcephalin 1 [Source:RGD Symbol;Acc:1560642]
Coordinates
chr16:76070367-76079508:-
Coord C1 exon
chr16:76078543-76079508
Coord A exon
chr16:76078483-76078542
Coord C2 exon
chr16:76070367-76070467
Length
60 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAAG
5' ss Score
5.73
3' ss Seq
CCAATCTACTTGTTTTTCAGGTG
3' ss Score
9.87
Exon sequences
Seq C1 exon
CAAGTCCGACTGTAGCCCGCAGTCCACAACCAGACCTATCCCGGGGACTCCTGATGTTGAGGCCTCTTCGTATGAGGACTATTTTTCCCCTGACAATCTCAAGGAGAGGAATTCAGGGAGACTTCCCGAGGCTCAGCTACTAGCAAGCCCTTCTCTGTTCCGCTGCAAAGGTCTCTCAAAGTGGGAGCGAAAAAACATGCTAGAAATGTGTGATTTTACCTGCATTGGTGAAAAACACAGATCCACCAACATTAGTGACTTAATTTCAAAAAGTACGTGTAGTCTTGAGAAACCTGATAAGGAGGACGTAAATACAGCTTCTACTTGCTTGCCTTTGTTGGGGACCTCTGCTGATGACAGCCCAGGGCAGCGCAGGCACCCTGGCCCTCAGCCGAGGGAAGACACAGGTCCAGAAGGAAGCAGCCACCCTGATATCCTGTACAGCCCTGCTCACCACATCACACCCTTGAAAGGAAGTAGTACAGAAACAAGAGACCCAG
Seq A exon
GTGATGGAAAAGGCTCCCCCAAAGAAGGCACCACTCCTCCCGCATCAGCCTCTCCTGAAG
Seq C2 exon
GTGTTAAAAATGGACTAGGGAGGCCAGATCCTTCAGACAGCTCGTACAGAGGCCTTGTCAGACCTCAAGAGAAACCGAAGAATTCTGGGAAAGAAAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028586-9-7,10-7,11-7-2/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.881 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF122583=Microcephalin=WD(100=99.5)
A:
NA
C2:
NO
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:
GAGGGAAGACACAGGTCCAGA
R:
TGTCTGAAGGATCTGGCCTCC
Band lengths:
146-206
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]