RnoINT0142940 @ rn6
Intron Retention
Gene
ENSRNOG00000003537 | Spta1
Description
spectrin, alpha, erythrocytic 1 [Source:RGD Symbol;Acc:1305194]
Coordinates
chr13:92278689-92280307:+
Coord C1 exon
chr13:92278689-92278799
Coord A exon
chr13:92278800-92280229
Coord C2 exon
chr13:92280230-92280307
Length
1430 bp
Sequences
Splice sites
5' ss Seq
ATAGTAAGC
5' ss Score
5.26
3' ss Seq
CGGTGTGATGTTTTTTTCAGACC
3' ss Score
9.02
Exon sequences
Seq C1 exon
GCTTTTCTGGAAAATGAAGACCTGGGAAACTCAGTGGGTAGCGTGGAAGCCCTTCTTCAGAAGCATGATGACTTTGAAGAAGCATTCACTGCCCAGGAAGAAAAGATTATA
Seq A exon
GTAAGCAATGGTTCTTATTTCTTAATTGCATGCACTGTTTCTATATATGCTTCTAAAGAGAGTCATCCTGTGACTATAAGACCTAGTATAGAGACAGTTCCCTGTAAATTGCTACTGCTTTGTTTGTTGTTGATAATATTTACTTACATGTCTTAAAACACTATGGTTGATTCTGTAACCACAGAGAATGTTTACATAGTGTGAAAGTGAAAACCAAATCAAAATTTATCCTTTGGGGAAAATATTAACGGCATAAAAATATGCATTTTAACAATAAATTACTTGATCTAAAAATATATTCAGAAAGGTAGCAAGACATTGTTTTAATGAAGTATGTACTTTATATTATGTATTTTGAATTATAAATAAAGTGCTAGATTTAATTTAAAATCATCAATTAAATGTTCAAAATGTGTTTTTTTCCTTTTCAATAATACTTTACTGCACATTCCTCTCAAAATTTACATGTTAAATAAATCATTTTCTCTGAAGGAATATTTTTCTTCATAACATAGCTGCATTTTTATTGTTTAATTTTCTATCTAATACTATTATGAAGCTTTTCTTTGGTAATTGTTATGATATTCTATAAAATGTATCACCTTATGAGAAGAACTTTCAAGAACATGATACGTCAGGAATTCAATACACTGTCTATCTTTGGTTGTTTCCTAGGATATTAAACACACACACACACAGACACACAGACACACACACACACAGACACACAGACACACACACACACAGACACACACACACACACACACACACACTCACACATACATACACATCATCACCAACACTAGTACAGAACACAGTTGATTCCAAACCTCCCCTATTAATTAATATCACACATAAGGTGATACCTTATTAATTCATATACTTGTATTAGATTCATACTGGTAAAAGGCTGAAATTAGAGTAACTTACTGTGTTTTTATATATTTTTTATAATTTTCCTATCCCAGCTAATAAATCCATTGAGAGATTTAGCAATTTGTGGGACTGATGAGTGAGTATGGCTAAAGACTCACATCTGTATTACACTCTGTCTATCTGGAGACAGAGATGCAGTTGCTGGTGCACATGATAGAGCACTGGATGGGATGCACAGAAGAGCTGTAAGAAAGAGAGATTGGACTTAATCCTTGATCACACTTCTCCTGTGTTTACTCATTGTGACATCTGAATTCTTGTTCGGTGACCTAGACTGAAAATATATATATATATTGCAGAAAAGGCAGTCATGAAGTATACATGAGTATACACTTTGAAGTGCAGATTTATCAGAACCTCTAAGCAGGATCTAGGCCTCCTAACCTTCAAGCTGTTGAACTTGTACATTGATACTCTTTACTGTAAGGATATATCCAAGCTAGGGCCACTCATTCACTTTTGCCAAGAAAAAGTCGGTGTGATGTTTTTTTCAG
Seq C2 exon
ACCTTGGATGAGACTGCGACCAAGCTCATAGACAATGACCACTATGACTCCGAGAACATTGCTGCTATCCGTGATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003537:ENSRNOT00000004716:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.027 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(34.3=100)
A:
NA
C2:
PF0043516=Spectrin=FE(23.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGGAAAATGAAGACCTGGGA
R:
CCCATCACGGATAGCAGCAAT
Band lengths:
184-1614
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]