RnoINT0143031 @ rn6
Intron Retention
Gene
ENSRNOG00000015396 | Sptan1
Description
spectrin, alpha, non-erythrocytic 1 [Source:RGD Symbol;Acc:621714]
Coordinates
chr3:8595368-8597483:+
Coord C1 exon
chr3:8595368-8595385
Coord A exon
chr3:8595386-8597428
Coord C2 exon
chr3:8597429-8597483
Length
2043 bp
Sequences
Splice sites
5' ss Seq
CGGGTTAAT
5' ss Score
-0.89
3' ss Seq
TGCGCTTCTGTTGTGTTTAGGTC
3' ss Score
10.94
Exon sequences
Seq C1 exon
AACGTATCTCCTCGACGG
Seq A exon
GTTAATATTGCCTTCTTTTCCGGGCTTGTGGTGTGGTGGTGTCTTGTGTGCTTGTCCCTTTGTCCCTTGTCCCCAGTGGCCTGGCTTGCAAAAGATCCCAGGATGGGCCTCCTGCCCACCTTGTCCATGCCCATTTTCCCTGCTAGAAGAACCCATAGTGTTGCGGGAGTCACCTCCCCTCTTTCAAGGTAGGGACTAGCTGTGGTGGGAAACCAGAGTCAGTCTGAGAACCCTGTCTGTGCCTGGCCACCAGAACTGGATTGCACTTGCCTGTTTTCCCATAGTGACCAAAAAATTTGCATTACGCCCCAGAGGTCAGTGGGCATATAGAGCTGGGTGGCTATGCTCAGAGCTTAGACTGAGGACAGCGTCCAGTTGAGGGGAAGCTCTGCAGCCCTCTTAGGACTGAGGTCGTCCTATCTTACCCCTGAGGAGAGTAACCAGGATTGTTTATCCGAGAAAAAGGCAAATGTCCAACGTTACAGTGTTACAGAGACAGGGCTTGGAGGAGCTGCGGGAGGAGCAGGGCTGTCCCCTAATCCCAGTAGGAGCCTGTATGAAGGGCCCCCACTTCAGCCCCCAATCCATTCGTGCTACTAACTAATCCAGACAAGAGGCCTAACAAGAACCTATGGCCTGTGAGATTCTGCAGAGGGGAAAGTCAGGCATGTAAAGAGATAATGACCACAGAAATCTGCCAAACCATTCAGGCTGTAGGAGGCTTTGCAAGGTGGGAAGGATTGCAGCATCTGGACTGCCTACCACAGGCTTCCCCACCCTATGCTGTCTGCTGCTCTTGGTCTTGTTTCTGTGCAGTGCCATGCTTCCTCACCTGTGGCTCCTCCCAAGCCTTGTCCCACCTGGCCCACCCCTTGAGCTGCCCCTGGTTCCTACCCAGTGCCAGGCTTCCAGCTGTGGCACGTGTCTGTCTCGATATGCTCTTGCCTCGCCTCCTTTTGGTGTATTCATTTGGTTTCTTTTCTTTGACTAGCATAGCATATCGTCGGGTCATTCGTGTCTATCAGTATGAAGTTGGGGATGATCTGTCTGGAAGGTTCTTCTCCTCTTATTTCTCTTCTTCCCTCACTGTGGTTTTACCAATGCACTCTGGACTCCCAGGCGGCTGCTTTCTAACCCACACCCTAGCCACTTGGGAGGAGGGTCTGTCCCCCTCTGCTGCACTGGCCCTGGCCCTGCCTCCTGCCCCGTCCCTGGGCTCCCTTTTCCTGGGGGACGGATCCTGCTTGTGAGTCTCAACTACTGCTGGGGTAGGAGGAAGCCTGGTGCCTTGCCTTGCTAAAGCACTTTGAACTTGGGGAAATTTTAGAGTTCTTCCTGACTCGCTGAAGTCGCAGGGGTAGGTCTGGGTAGGCATGGGTGCAGCGGAGACCGGGCTGTGTGCACTGTGTGAACTTGTCCCTGCACGTGACCCATGACCCTGCTCGCTTGTTGTCTTCGTTCACTGGGAACCTTCTTTGTACTCACATCTTAGAGGGAGCAGGCTTCCCCCAAGGCCACCTGGCTCAGAAAATGGCCTTCAAAAGATCCTGGCTGTGTCTAGATACTGGAGCCTGAATCCAGAGTTCCATCATAGCTGTCCTCAGCTGGGACCAGCTTGCCGGCACGCCCACTTAGCTATCTTACTGGCTGCGGTGTCTCCTCCCCTCGGTAGCCTAAGGGGACTAAACTCAGTCTCTTCACTGTCCTTACAGCCCCAAGGGCTCCTATCTGATGGCTTCTTGGCCTCCTGTGAGTGCAAAAATAGGGGCTAGTCAGGCCTGAAGCTGCTTTGTTCTTAATGGGGAACAAATTCAGTTCCTGAGTGACCTTTAAGAGCTGAGCAGCTCTGGCCTGTGTCTCTGAAACAGATGGGACCTGCTCTTTCTTGGGCCTGTTAGGAGAGGTAGCTGACACCAGATAAACTGTTTCCTCAATGAAAAGAATTTGAGGCTGTGGGCACTTTTTACCAGGACGAAGAGTTAAGTATGGGCGCTGGTCTGCAGAAATGAACACTCCTGCTCACTGCGCTTCTGTTGTGTTTAG
Seq C2 exon
GTCCTGCATGGTCGAAGAGTCGGGAACTCTGGAATCTCAGCTTGAAGCTACCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015396:ENSRNOT00000045827:50
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.546
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(20.7=100)
A:
NA
C2:
PF0043516=Spectrin=FE(17.0=100)
Main Inclusion Isoform:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]