RnoINT0142972 @ rn6
Intron Retention
Gene
ENSRNOG00000003537 | Spta1
Description
spectrin, alpha, erythrocytic 1 [Source:RGD Symbol;Acc:1305194]
Coordinates
chr13:92323946-92324713:+
Coord C1 exon
chr13:92323946-92324108
Coord A exon
chr13:92324109-92324636
Coord C2 exon
chr13:92324637-92324713
Length
528 bp
Sequences
Splice sites
5' ss Seq
TAGGTATGA
5' ss Score
6.99
3' ss Seq
TGACTGTCCTTGTTTGTTAGGTG
3' ss Score
9.14
Exon sequences
Seq C1 exon
GAAGAAACTCAAAACAAGGATAAGATTTCCACCAAGATTGAAGTTCTGAATGAAAAGACAGCATCTCTGACCAAGGCCTTAGCTGCTTGGAAGTCACAGCTGGACGAAGTGCATGCCTTTCAGCAGTTTAACTGGAAGGCTGATGTCGTGGAATCCTGGATAG
Seq A exon
GTATGAGGTTCCAGCGCTGCTCTAAGTACCATTTGAAGAATGGTCTCTAGATTTTTTCTTTACCTTTGTAAATGAGGTGAACTACTCATTTTTATTCCTCCTGGGTACAGTCTTACACACACACACACACACACACACACACACACACACACACACACAAACACAAATGTTCACACCAATGGTAAGGAATAAGGTAGCTGGTAGAATAAACCCACAGGACACAGTTGTTTCAGACTGTTAATTTCATCATTCTATTTAAAATGGGAAATCCTCCACAAAGTATCCCAGGAAACAAACTGTAGTGCTCATTGATTTGTTTGTAATTCATGTTCAACCTTGAACTTTCCTGCAGCCCATGATTCAACACTGCTTTTGCACTTAGCACTTTCTGTCAGCTTCATTTAAGGACAGAAAAGCATCCAATCTTCCCACTGCTTCTGTGTTGCACGGAGTCACCTGTTCAGGGATCAGGAAGCTTTCTCATTGTAAATCATTTAGTATTCCCTCCTGACTGTCCTTGTTTGTTAG
Seq C2 exon
GTGAGAAGGAGGCAAGCCTGAAGACCAAGAGCAATGGTGCAGACCTCACTGCCTTCCTCACACTCCTGGCAAAGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003537:ENSRNOT00000004716:41
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.127 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(33.0=63.6),PF0043516=Spectrin=PU(16.0=30.9)
A:
NA
C2:
PF0043516=Spectrin=FE(23.6=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:
TCAAAACAAGGATAAGATTTCCACCA
R:
TTGCTTTGCCAGGAGTGTGAG
Band lengths:
232-760
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]