RnoINT0143006 @ rn6
Intron Retention
Gene
ENSRNOG00000015396 | Sptan1
Description
spectrin, alpha, non-erythrocytic 1 [Source:RGD Symbol;Acc:621714]
Coordinates
chr3:8575425-8576542:+
Coord C1 exon
chr3:8575425-8575472
Coord A exon
chr3:8575473-8576450
Coord C2 exon
chr3:8576451-8576542
Length
978 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
ATATTACCATTCTCCTGTAGGAG
3' ss Score
8.72
Exon sequences
Seq C1 exon
TCTGCTCGACTGATGGTCCACACAGTGGCCACCTTCAACTCCATCAAG
Seq A exon
GTAAGGAGTAGTGAGCAGCTACCCCACTTACCTTGCTTCTCTTCACTGTCTTCCTTTCACAACCATAGAGGGCTGTCCTTGTTCAGGAGCATGCTGTGACCAGGCCTACTTCCATGGTCTCAAAAACATCTCAGAAACCCAGGCCCTCATCAAATGCCTAGAGTTATGAAATAGCTTGATTATGTTTCTCGATCTAACCTCAATCTGAGCATGTCTCACTTTCCTATTGCTATGACAAAACACTATGACCAAGGTGATTTATAAAAGAAAGTATTTAGTTGGGCTTATGGTTTCAGGATAGAGTCCATGATGGCATGGCAACAGGAGCAGCTAAGCCCCTCATGCAAACAGGCAGAGAGAATACATTGGGAGTGGCCAGTCTTTTGACACCTCAAAGCTTGTTCCCAACACCCAGTGATACATCTTCCCCAACAAAGCCAGTTCCTTCCCAAGCATCCAGAGGGAAGTATTCCAATAGAGCCTATGGAAGTCATCCTTATCAGACCAACACAGGGTAGTACTGAAAACCCTTGCTAGGATTTCCAGTGGAGTAGGAACGTTAAGGACTCACACACACACACACACACACACACACACACACACACACACACACCCCACTGTCTGCATTCGCCTTTCCCAGACGTGCTCTGGCCCAAGACTTCATGGGTTGTAGTACTAAAATAAAAAAAGAGTCTCAGATGTCTCCATTTGGCAGTTACTTGTAGGCACCACATGCCCGACACCAGTGTTGGTTTATCCAATGTTGCAAAGGTTTCTAAGTCAGGCAGTTGGGGGACATTGGGGATTGCTAGATATGACTTGTTTGCTCTCCTAAAGATCGCTGTTTTGTGGTATACTGCTGTTATATTTGCAAGGAGGGTTGGAGATGAAAACTTACAGGCACCTGCTCTCCTAAGGTCTGTTTGTGGGTGTCACAGGCCAGGCTAGAAGAGAACTGATATTACCATTCTCCTGTAG
Seq C2 exon
GAGCTGAATGAGCGCTGGCGGTCCCTGCAACAGCTGGCTGAGGAACGTAGCCAGCTCCTGGGCAGTGCACACGAAGTACAGAGGTTCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015396:ENSRNOT00000045827:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.030 A=NA C2=0.323
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043516=Spectrin=PU(6.7=22.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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]