DreINT0155162 @ danRer10
Intron Retention
Gene
ENSDARG00000019231 | spna2
Description
spectrin alpha 2 [Source:ZFIN;Acc:ZDB-GENE-051113-60]
Coordinates
chr21:13074918-13075293:+
Coord C1 exon
chr21:13074918-13074995
Coord A exon
chr21:13074996-13075137
Coord C2 exon
chr21:13075138-13075293
Length
142 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
TTTGTTTTTTTCTGCTTCAGCTG
3' ss Score
9.58
Exon sequences
Seq C1 exon
GCGCTGGATGAATTTGCCACCAAACTGATCCAGAACAATCACTACGCCAAGGATGATGTGGCCACCCGCAGAGATGCA
Seq A exon
GTAAGTGGAGATTAGCAGTGCCCTGAAACGCCCTTCATTTTAACACCGCAAGCACTTTGCTTCCCTCAATTATTGCTGACAGAAGTGCTGAATCACTGGTAATGCTATGATTTAAACACCTTTTTGTTTTTTTCTGCTTCAG
Seq C2 exon
CTGCTGAGCAGACGCAACGCTCTTCATGAGCGGGCTCAGTTTCGCCGCGCTGCCCTGGAGGACTCCTTCCATCTGCAGCAGTTCTTCCGAGACTCTGATGAGCTCAAGAGCTGGATTAACGAGAAGATGAAGACCGCCACTGATGAGGCCTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019231:ENSDART00000102251:12
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=0.135
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(23.8=100)
A:
NA
C2:
PF0043516=Spectrin=PD(19.0=38.5),PF0043516=Spectrin=PU(27.9=55.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGCTGGATGAATTTGCCAC
R:
CTTGTAGGCCTCATCAGTGG
Band lengths:
234-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]