DreINT0155209 @ danRer10
Intron Retention
Gene
ENSDARG00000019231 | spna2
Description
spectrin alpha 2 [Source:ZFIN;Acc:ZDB-GENE-051113-60]
Coordinates
chr21:13120226-13120917:+
Coord C1 exon
chr21:13120226-13120373
Coord A exon
chr21:13120374-13120453
Coord C2 exon
chr21:13120454-13120917
Length
80 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAA
5' ss Score
7.09
3' ss Seq
GATGGTCATTGTGTTTGTAGAAC
3' ss Score
6.56
Exon sequences
Seq C1 exon
GGATGGAAACGTGTCCTTGCAGGAGTACATGGCTTTCATGATCAGCCGAGAAACGGAGAACGTCAAGTCAAGCGAGGAGATCGAGAGCGCTTTCCGTGCTCTGAGCGCAGAAAACAAACCCTACGTCACCAAGGAAGAACTCTACCAG
Seq A exon
GTACAAACCCAAGCCATTAATAGCTTGATCTCGTTTTAATGTTTGGTGTTGATCTTTGACGATGGTCATTGTGTTTGTAG
Seq C2 exon
AACCTGACAAAGGAACAAGCCGACTACTGCATTTCCCATATGAAGCCCTACCTAGACAGCAAGGGCCGCGAAATCCCATCAGCTTTCGACTTTGTGGAATTCACCCGCTCGCTCTTCGTCAACTGATTACCCGCCCCCTGCCTGCCAGTGACCAATCGGGACGCGTTTCCCCACCCCTCACAAGAACACACAGCCAAACTGCATGGATCTGAATTGAGAATTCTCTATAGCACCCAGTATAGCAATATCTGTATCTTGCTATCACTCTTAACCCCTGCGTATTTATCTGACACTTCCTCATGCTTCACTGACAATAGTGTAGTGGATCTGTCTGCATTTTATTGTGGTTGTTTTAGCTGTTAAGTGCTTTGCTTTGTTTAACAATCCTATAGAGAGGATATGCTGTAACATCGCTCACGAGACTGCAGTGTGCTTCAATAAACGCTACTGGTTATAACTGGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019231:ENSDART00000102251:55
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.040 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=PD(17.3=26.0),PF087265=EFhand_Ca_insen=PU(41.4=58.0)
A:
NA
C2:
PF087265=EFhand_Ca_insen=PD(55.7=92.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGATGGAAACGTGTCCTTGCA
R:
CGGCTTGTTCCTTTGTCAGGT
Band lengths:
170-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]