RnoALTA0021241-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000023233 | LOC102546648
Description
uncharacterized LOC102546648 [Source:RGD Symbol;Acc:7541917]
Coordinates
chr1:99489149-99496209:+
Coord C1 exon
chr1:99489149-99489250
Coord A exon
chr1:99493847-99493957
Coord C2 exon
chr1:99493958-99496209
Length
111 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
ATACTCTTTTCATCTCCCAGAAG
3' ss Score
8.04
Exon sequences
Seq C1 exon
GCTACCCTATTCCCAGCCCTGGGGCCATCTTCAGGATAAAGAAAAGAAAGAAGACACAGACAGGAGAGGCTAAGTTCCCACATCATCAGTGTTGGTGTCAAG
Seq A exon
AAGTGGAATCAGAGTTTTACACTCCCCGACAGAAAGCTTCCGAGAATGCAGCATTTCAAACCAGAAAGGCGAGTGCACTCTCAGGTCATGGTTTGTGGTGCTCTATTTTAG
Seq C2 exon
AAGTACTGTGGCAAGACCCCGACCTTACAAAAAGAGATGGACAAAGCCAGATCCCACCCTGGAGTCCTGGTGCTTTCCTCAACAAGAAAACACAGAACACAGACAGAGACTGTGGTTGTAAAGAGCCCGGAAAAACCACCCCCTTGGTATCTAACCTTATTTCTACACAAAAGGGAGCTCCAAAGTCACTTGCGAAACATTTGAAGCGCAACCTTGAAGCAAATGGTGAAGAACAAGGCAACGTCACAAAGCAGCTTAATGACATTGTTACGTTGGGTCGACTCTGCACGCAAGACACTAACTGTACAGTTCCTCACGAAGGGCCGTGCGAAGGTGACCAGTGCAGAAAAGTTCCCATCCACAAACAACCACTTGCAGAGAAAGAAGTCCATTCTCACGAGAAGCCAGATGAAGGCACGGGACGTGGAAGGACCGACGATGCGTCTGCTTTCTGTCAACATCAGACAGCTCACACCGGAGAAGGACCTCTTGTCTGTCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000023233-9-8,9-7-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.086 A=NA C2=0.192
Domain overlap (PFAM):
C1:
PF0135222=KRAB=PD(0.1=0.0)
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=3.0),PF134651=zf-H2C2_2=WD(100=3.3),PF134651=zf-H2C2_2=WD(100=3.3),PF134651=zf-H2C2_2=WD(100=3.2),PF0009621=zf-C2H2=WD(100=2.9),PF0009621=zf-C2H2=WD(100=2.9),PF134651=zf-H2C2_2=WD(100=3.3),PF097235=Zn-ribbon_8=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=3.3),PF134651=zf-H2C2_2=WD(100=3.2),PF134651=zf-H2C2_2=WD(100=3.3),PF134651=zf-H2C2_2=WD(100=3.3),PF0184418=HNH=WD(100=3.0),PF134651=zf-H2C2_2=WD(100=3.3),PF134651=zf-H2C2_2=WD(100=3.3),PF134651=zf-H2C2_2=WD(100=3.3),PF134651=zf-H2C2_2=WD(100=3.3),PF134651=zf-H2C2_2=WD(100=3.2),PF134651=zf-H2C2_2=WD(100=3.3),PF134651=zf-H2C2_2=WD(100=3.3),PF0009621=zf-C2H2=WD(100=2.9)
Main Skipping 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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGACACAGACAGGAGAGGCT
R:
TCGCAAGTGACTTTGGAGCTC
Band lengths:
247-358
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]