RnoALTD0006946-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000001247 | Clip1
Description
CAP-GLY domain containing linker protein 1 [Source:RGD Symbol;Acc:67404]
Coordinates
chr12:38399847-38403664:+
Coord C1 exon
chr12:38399847-38400418
Coord A exon
chr12:38400419-38400646
Coord C2 exon
chr12:38403548-38403664
Length
228 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
3' ss Seq
CATATAACTCGGTGTGTTAGGCT
3' ss Score
3.89
Exon sequences
Seq C1 exon
ACCACTTTGGAACTCGGGAAGAGATGTTTCAGAAGGAGATCAAGGCTCTGCACGCTGCCACTGAAAAGCTCTCCAAAGAGAACGAGTCCTTGAGGAGCAAGCTTGACCATGCCAACAAGGAGAACTCAGACGTCATCGCTCTGTGGAAGTCCAAACTGGAGACCGCCATCGCGTCCCACCAGCAGGCAATGGAGGAGCTGAAGGTGTCCTTTAGCAAAGGGATTGGAACTGACTCGGCTGAGTTTGCTGAGTTAAAGACACAGATAGAGAGACTCAGACTAGATTACCAGCACGAAATAGAAAGTTTACAGAGTAAGCAGGACTCCGAACGGTCTGCCCATGCTAAAGAGATGGAGTCCATGAAGGCCAAGCTGATGAAGATCATCAAAGAGAAGGAGGACAGCCTGGAGGCCGTCAAAGCACGGCTGGACACGGCGGAAGACCAGCACCTGGTGGAGATGGAGGAGATGCTCAGCAAGCTGCAGGAGGCAGAGATTAAG
Seq A exon
GTAAAGGAACTAGAGGTTCTGCAGGCCAAGTACAGTGAACAAACCCAGGTCGTTGGTCATCTCACATCACAACTCAGTGTTGTCGAAGAACAGCTCTTGGATCTGGATGCCCTTCGGAAGGCCAACTCCGAAGGTAAACTGGAGATCGAGACACTTAGGCAGCAGCTTGAGGGAGCCGAAAAGCAGATTAAAAACTTAGAGATGGAGAGGAACGCTGAAAGTAGCAAG
Seq C2 exon
GCTAATAGCATTACCAAAGACCTCCAGGGAAAAGAACTAATGCTCACTAGTCTGCAGAGCAATTTGAATGAAGTCAATCAAGTGAAGGAGACTTTGGAAAAAGAACTTCAGACTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001247-28-20,29-20-2/2
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=0.413 A=NA C2=0.410
Domain overlap (PFAM):
C1:
PF0157614=Myosin_tail_1=PU(66.2=82.8),PF0017016=bZIP_1=WD(100=16.3)
A:
NA
C2:
PF097694=ApoO=FE(38.8=100)
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGGCTGAGTTTGCTGAGTTA
R:
CCCTGGAGGTCTTTGGTAATGC
Band lengths:
296-524
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]