RnoINT0143001 @ rn6
Intron Retention
Gene
ENSRNOG00000015396 | Sptan1
Description
spectrin, alpha, non-erythrocytic 1 [Source:RGD Symbol;Acc:621714]
Coordinates
chr3:8570629-8571970:+
Coord C1 exon
chr3:8570629-8570688
Coord A exon
chr3:8570689-8571771
Coord C2 exon
chr3:8571772-8571970
Length
1083 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
CCCCTGTTGACTTCTGTCAGGTA
3' ss Score
7.75
Exon sequences
Seq C1 exon
GACACGCATAACTAAGGAGGCCGGCAGTGTATCTCTGCGTATGAAACAGGTGGAAGAACT
Seq A exon
GTGAGTAGGCGGAGAAGCTGGCTGAGTTCCCATGTCACTGCTACACCTGTCCATCCCCCCTGCCGCTCCTCTCCAAAGCGCTTTCCATTTAGAATGAGGTGGTGCAGGGGACCTGCCACATCTGCACACAGCTTCGCTGTCTGTGGGAGAGCTCTCAGTGGAACGGCTCTCCCTGGTTGCTTCTGCCCGCTTGTGTTTGGAACGGTGTTGGTTCACTCTGTGGTAGAGCAGGAGCAGCGTCTGTCCTCCATAAACCTGCAGCCAGTTCTGTTGTATTCCTCAGTAGGGAGGCAATGAAGTGTGGCTTAGAGCTTAGGGGCTCTGATTTCTGGTGATTTAGTACTTTTTGTTTGGGAAGCTTAGATTTAGTGATGATTTTTCAGAGTTTTCTTTAACTTTGAATTTCATTTCTTACTCAGATTTGTCATTTTTGTGTCTTGAAAGATAGTGGTAGTTCAGCTTAAATCTTAGTTCTCGTGGACTAGAAAATTCTTTTGATTCTTCTTAGGTCTTGTAGGTGATGGAGTTGCGTACAAACCGCAGGCTACCTGATATTCTCTCATTGCTCAAAAGTAGATCGCCATGGAAATGCCCTGCTGGTCACAGATGGTGACAGATGGAGCATCCTGTATTGGGCTGTATTGAAGCTCTTATCTCCCCCTTAGGGGCTGCTCAGAAAACTATAAAGCCAAGAAAATCCCTTCAATACATTATGTAGTTTCATCTTTATGTAGCCTCATCTCATCTCTCCAATACAGTCGCATGAACCTTCTGTTTCTGTGCTAAGTACTTGGTTTTAGGCTTATGTGATCATAATAGTGGCCAAGTGCACCCGGGGGTAAGTGTGCCTGGGCTATGGTAACTCACCCCGTTCTGCCCAGCGTGTGCTTATCCCCAAGGCTGTAGTTTGAATGCCTAGACTCCCCATCTCCATGTGCTCTGATCCTTTGTTGCTAGGCACCTTCATTACAAACTCATGCCTTGGGTCACATCTCAGATGCCTAGTGGCTGTCCTGTGTTAGCATCCGTGATGAGCTAACTGCCTCCCTTGCCCATTGTGTTACCCCTGTTGACTTCTGTCAG
Seq C2 exon
GTATCAGTCTCTGCTGGAGCTGGGTGAGAAGAGAAAAGGCATGTTGGAGAAGAGTTGCAAGAAGTTCATGTTGTTCCGGGAAGCGAACGAGCTACAGCAGTGGATCAACGAGAAGGAAGCTGCTCTAACGAGTGAAGAGGTTGGCGCTGACTTGGAGCAGGTCGAGGTGCTGCAGAAGAAGTTCGATGACTTCCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015396:ENSRNOT00000045827:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.017
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043516=Spectrin=PU(54.1=68.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACACGCATAACTAAGGAGGCC
R:
TGGAAGTCATCGAACTTCTTCTGC
Band lengths:
254-1337
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]