DreINT0155207 @ danRer10
Intron Retention
Gene
ENSDARG00000019231 | spna2
Description
spectrin alpha 2 [Source:ZFIN;Acc:ZDB-GENE-051113-60]
Coordinates
chr21:13119679-13119961:+
Coord C1 exon
chr21:13119679-13119732
Coord A exon
chr21:13119733-13119814
Coord C2 exon
chr21:13119815-13119961
Length
82 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGC
5' ss Score
7.47
3' ss Seq
GATGCGAATGTTTGCTTCAGGCA
3' ss Score
5.07
Exon sequences
Seq C1 exon
AAACACTACAGGTGTAACAGAAGAGGCCCTGAAGGAGTTCAGCATGATGTTCAA
Seq A exon
GTAAGCAGCCCACTTATTATTTCACAATACACTGCTCAACTGAAAGTGCTAACTGAAAACGTGATGCGAATGTTTGCTTCAG
Seq C2 exon
GCACTTCGACAAAGAAAAATCTGGCCGTCTGAATCACCAGGAGTTCAAGTCTTGTCTGCGGTCTCTGGGTTACGACCTTCCCATGGTGGAAGAAGGAGAACCAGACCCAGAGTTTGAGTCCATCCTGGATATAGTGGATCCAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019231:ENSDART00000102251:53
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.263 A=NA C2=0.280
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=PU(16.0=63.2)
A:
NA
C2:
PF134991=EF-hand_7=FE(65.3=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:
AGGTGTAACAGAAGAGGCCCT
R:
AGGATGGACTCAAACTCTGGGT
Band lengths:
171-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]