RnoALTA0018304-3/3 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000036839 | Hnrnpa1
Description
heterogeneous nuclear ribonucleoprotein A1 [Source:RGD Symbol;Acc:69234]
Coordinates
chr7:144868935-144869926:+
Coord C1 exon
chr7:144868935-144869000
Coord A exon
chr7:144869197-144869576
Coord C2 exon
chr7:144869577-144869926
Length
380 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TGAGTCTTAATGTGTTTTAGATT
3' ss Score
8.71
Exon sequences
Seq C1 exon
GTGGCTATGGAGGTTCCAGCAGCAGCAGTAGCTATGGCAGTGGCAGGAGGTTCTAATTACAGCCAG
Seq A exon
ATTAACAACTTTATTCCATATTGTTCAACAGGAAACAAAGCTTAGCAGGAGAGGAGAGCCAGAGAAGTGACAGGGAAGCTACAGGTTACAACAGATTTGTGAACTCAGCCAAGCACAGTGGTGGCAGGGCCTAGCTGCTACAAAGAAGACATGTTTTAGACAATACTCATGTGTGTGGGCAAAAACTCCAGGACTGTATCTGTGACTAATTGTATAACAGGTTATTTTAGTTTCTGTTCTGTGGAAAGTGTAAAGCATTCCAACGAAGGGTTTTACTGTAGACCTTTTTCACCCATGCTGTTGATTGCTAAATGTAAAAGTCTGATCATGACGCTGAATAAATGTGTCTTTTTTTTTTTTTTTTAATGTGCTGTGTAAAG
Seq C2 exon
TTAGTCTACTCTGAAGCCATCTTGGTAAACTTCCCCAACAGTGTGAAGTTAGAATTCCTTCAGGGTGGTGCCAAATTCCATTTGGAATTTATTTATGGTTGCTTGGGTGGAGAAGCCATTGTCTTCAAAAACCTTGGTGTTGCTAAACTGCCAGTTACTGTTGTAACTTAATGAGTTTCACCATTTAAAGGGTCATCCAAGCAAGATCACAATTTGGTTATAAAATGGTTGTTGGCACACCCTATGCAATATCAAAATTGAATAACGGTCTCAGATAAAATAACAGATGGGAATGAAGCTTGTGTATCATCCATTATCATGTGTACTCAATAAACGATTTAATTCTCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000036839-24-26,24-25,24-23-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
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:
CAGTAGCTATGGCAGTGGCAG
R:
ACACAAGCTTCATTCCCATCTGT
Band lengths:
346-726
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]