RnoALTA0045003-4/4 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000037085 | Xirp1
Description
xin actin-binding repeat containing 1 [Source:NCBI gene;Acc:100910104]
Coordinates
chr8:128704895-128711221:-
Coord C1 exon
chr8:128710958-128711221
Coord A exon
chr8:128707857-128708273
Coord C2 exon
chr8:128704895-128707856
Length
417 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
GCTTCTCCCCTCCTTCCCAGAAG
3' ss Score
8.27
Exon sequences
Seq C1 exon
GTGCACAAAGCCCTGGGTTCACCACATAAAACCAGAAATGGCGTTTCGTGTTGCATGCTTGTAATCTGTCTGGGGGGTGGGGGGTGGAGGCAGGAGGGTCTAGAGTTCAAGGTCATCCTCAACTACTTACGGAGTTCAAGGCCAACCTGGACTGGATGAGAATCTGTCTGAAAAATAAATAAAAAGGCTGATGTGGCTCCTCTTGCTGCAGGGCTTCCTCTCAAGAAACCTGAGATCTCGGGAAAGAGAGAAGAGAGGCAGAAG
Seq A exon
AAGGATGGCCGATGCCCAGATGCAGGTAGTTCATACACCAACCATCCAAATGAGGACTGGAGAGGACCTGCCCCTTCCCCCTCCCTCAGCCCTAGAGGGTCTGCCGCCACCGCCCCCCAAAGAATCTTTCTCCAAGTTCCAGCAGCAGCGGCAAGCCAACGAGCTTCGCCGTCTCTACAAACACATCCACCCTGAGCTTCGGAAGAACCTCGAGGAGGCTGTAGCCGAGGACCTGGCCAAGGTACTCGGTTCGGAGGAGCCCACCGAGGGCGATGTGCAATGTATGCGCTGGATCTTTGAGAACTGGAGTTTGGATGCCATTGGCGACCACGAGAGGCCAGCTGGCAAGGAGCCTGTGTCAGGTGGCAACGTTCAGGCCACCTCTCGGAAGTTTGAGGAAGGCTCCTTTACCAACAG
Seq C2 exon
CTCAGATCTGGAGCCAGGACCCCAGCTGTCAGGGGGTGACGTCCGAGCTACCAGACAGCTGTTTGAGACCAAGTCACTGGATGCACTGACAGGCCAGGAAGAGGCAACACAGATGACCATGAAGGAACCTGCAGTCTCTGGAGATGTACAGGGAACCAGAAAACTCTTTGAGACTAAGCCCCTCGACATGCTGGGCTCCTGCCCCTCTATCCAGGACCAGAGCCCTTTAGAGCTGCGCTCAGAGATTCAGGAGCTGAAGGGTGATGTGAAGAAGACGGTGAAGCTGTTTCAGACGGAGCCTCTATGTGCCATCCAGGATGCAGAGGGCGCCATCCATGAAGTCAAGGCTGCCTGTCGGGAGGAGATCCAGAGCAATGCAGTGAGGTCAGCTCGCTGGCTCTTTGAGACCCGACCTCTGGACGCCTTCAACCAGGACCCCAGCCAGGTGAGGGTGATTCGGGGGATCTCCCTCGAGGAGGGAGCCCTGCCCGACGTCAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000037085-2-4,2-3,2-2,2-1-4/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.280 A=NA C2=0.634
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF080437=Xin=WD(100=1.4),PF080437=Xin=WD(100=1.4),PF080437=Xin=WD(100=1.4),PF080437=Xin=WD(100=1.4),PF080437=Xin=WD(100=1.3),PF080437=Xin=WD(100=1.4),PF080437=Xin=WD(100=1.4),PF080437=Xin=WD(100=1.4),PF080437=Xin=WD(100=1.4),PF080437=Xin=WD(100=1.4),PF080437=Xin=WD(100=1.4),PF080437=Xin=WD(100=1.4),PF080437=Xin=WD(100=1.4)
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
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGATGTGGCTCCTCTTGCTG
R:
ACATCACCCTTCAGCTCCTGA
Band lengths:
344-761
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]