RnoINT0142989 @ rn6
Intron Retention
Gene
ENSRNOG00000015396 | Sptan1
Description
spectrin, alpha, non-erythrocytic 1 [Source:RGD Symbol;Acc:621714]
Coordinates
chr3:8562492-8563513:+
Coord C1 exon
chr3:8562492-8562602
Coord A exon
chr3:8562603-8563435
Coord C2 exon
chr3:8563436-8563513
Length
833 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGA
5' ss Score
5.96
3' ss Seq
ACTCTTGCCTTCCCTTCTAGGCA
3' ss Score
11.21
Exon sequences
Seq C1 exon
GCATTCCTGCTAAATGAAGATTTGGGTGACTCCTTAGACAGTGTGGAAGCTCTTTTGAAGAAGCATGAGGACTTTGAGAAATCTCTCAGTGCCCAGGAAGAAAAAATCACA
Seq A exon
GTAAGATCCTCCTTGTCACGTGATCACAGACGAAACTGAATCCCTTTCAGAGAGGTTTGGGAATTCCGTGCAGGGCACTCCCAGGACAATATAAGACCTCACAATCACACCCTCTCATCACTTTGCACTTGTAACACAGCTTTATGGAGCAGAATTAATTGCTTAATGGAAACATCCTAAATTGAGATGTGCCTGTGACTTGACACTACCCTAGTAGAAAGGGTAAGGCTGTTGACTGACATCTGACACTTGAGATTCTCATGAAGCAGGTCGTGTCTGTAGACTTGGCATGAGCAGTCTTGTATCTTGGATAAAATCAAGGAGAGTTTTCTATCATGGCCACTTACAACAATGATGCTCACGTGTGCAGAGCTCATGAGAACTGGAGACTTCTCCCCCTTCTCCTAAGTCACAGTAGCGTCTCTTAACATTTTAAGTTTAGGATTTTGTGTTAGTCTGAATTCGTGGCTATCCTAGAGTACATGCAGCCTGTGAGCCACAGGTTGGACATGCCTGTAGATCTGTGGATAAGCAATCAGCCAGCCGGGCCCAGTAGTAGGCATGTGTCACAGTGTGAACCTTCACTGATAGGATTAGGGTGCTTTGCCCAGCTTGGTGGTGCATGCCTTTAATCCCACCCTTGGGAAGCAGAGGCAAGTAAATCTCCTGAGTTCCAGACCAGCCTGGTCTACAGAGCAAGTTCCAGATCAGCCAGGGATACACAGAGACACCTTATCTTGGGGGGGTGGGGGGAGGGAGAGAGAGTGTTCTGTTCTCCATAGTCCAAGATAGGGCTCAGTGCTCACAATGACAACTCTTGCCTTCCCTTCTAG
Seq C2 exon
GCACTTGATGAGTTTGCAACCAAGCTTATTCAGAACAACCACTACGCAATGGAAGATGTAGCCACTCGACGAGATGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015396:ENSRNOT00000045827:12
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=0.000
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
Other Skipping Isoforms:
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTGCTAAATGAAGATTTGGGTGA
R:
AGCATCTCGTCGAGTGGCTAC
Band lengths:
185-1018
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]