DreINT0155200 @ danRer10
Intron Retention
Gene
ENSDARG00000019231 | spna2
Description
spectrin alpha 2 [Source:ZFIN;Acc:ZDB-GENE-051113-60]
Coordinates
chr21:13108871-13109450:+
Coord C1 exon
chr21:13108871-13109080
Coord A exon
chr21:13109081-13109153
Coord C2 exon
chr21:13109154-13109450
Length
73 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGA
5' ss Score
9.11
3' ss Seq
AACTCTTGTTCTCCATTCAGGTG
3' ss Score
10.26
Exon sequences
Seq C1 exon
GAAACCTTTGATGCAGGACTTCAGGCCTTCCAGCAGGAGGGCATCACCAACATCACAGCTCTAAAAGACCAGCTGCTGGCAGCCAAACATGTGCAGTCTAAGGCCATCGAGGCTCGTCACGCCACCCTGATGAAGCGCTGGAACCAACTACTATCCAACTCAGCAGCCCGCAAGAAGAAGCTTCTGGAAGCACAGGACCACTTCAGAAAG
Seq A exon
GTATGAAGAACGCAAATGTACCTGAAAGAAAACTATTTATTTGGTTTGCCTTCAACTCTTGTTCTCCATTCAG
Seq C2 exon
GTGGAGGATCTTTTCCTCACGTTTGCCAAGAAAGCCTCAGCCTTCAACAGCTGGTTTGAGAACGCAGAGGAAGATCTGACCGATCCTGTGAGGTGCAACTCTCTGGAGGAGATTAGGGCACTGCGGGATGCCCATGATGCCTTCCGCTCGTCCCTGAGCTCCGCAGAGGCCGACTTCAGCCAGCTGGCAGAACTCGATCGGCAGATTAAGAGCTACAACGTGGTGTCCAACCCATACACCTGGTTCACCATGGAGGCTCTGGAGGAGACCTGGAGTAACCTTCAGAAGATCATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019231:ENSDART00000102251:47
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=PD(58.5=88.6)
A:
NA
C2:
PF0043516=Spectrin=PU(91.4=97.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAGCGCTGGAACCAACTAC
R:
GAGTTGCACCTCACAGGATCG
Band lengths:
181-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]