DreINT0155169 @ danRer10
Intron Retention
Gene
ENSDARG00000019231 | spna2
Description
spectrin alpha 2 [Source:ZFIN;Acc:ZDB-GENE-051113-60]
Coordinates
chr21:13079040-13079365:+
Coord C1 exon
chr21:13079040-13079132
Coord A exon
chr21:13079133-13079230
Coord C2 exon
chr21:13079231-13079365
Length
98 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGA
5' ss Score
5.73
3' ss Seq
GCTCCTTTTTTCATCGACAGCAA
3' ss Score
6.97
Exon sequences
Seq C1 exon
GCTTTGCTGAAGAAGCATGAGGCTCTGATGTCTGATTTGAGTGCATATGGCAGCAGCATCCAGGCCTTGAAAGAAGAAGCTCAGGCCTGCAGA
Seq A exon
GTAAGACCACATAACAACACTATTGCACAAAGACCAGCAAATAACAGACAACATGTGCCTTTTACATTAATGAAACCTGCTCCTTTTTTCATCGACAG
Seq C2 exon
CAACAAGTGGCCCCCACTGATGACGAGACTGGCAAGGAGCTGGTTCTGGCTCTGTACGACTACCAGGAGAAGAGTCCACGTGAGGTCACCATGAAGAAGGGAGACATCCTCACTCTGCTCAACAGCACCAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019231:ENSDART00000102251:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.226 A=NA C2=0.194
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(35.7=100)
A:
NA
C2:
PF0043516=Spectrin=PD(17.9=33.3),PF0001823=SH3_1=PU(63.0=64.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATATGGCAGCAGCATCCAGG
R:
GCAGAGTGAGGATGTCTCCCT
Band lengths:
168-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]