DreINT0155203 @ danRer10
Intron Retention
Gene
ENSDARG00000019231 | spna2
Description
spectrin alpha 2 [Source:ZFIN;Acc:ZDB-GENE-051113-60]
Coordinates
chr21:13070284-13071502:+
Coord C1 exon
chr21:13070284-13070564
Coord A exon
chr21:13070565-13071357
Coord C2 exon
chr21:13071358-13071502
Length
793 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
TATTATTTTCTGTCCTGCAGGGA
3' ss Score
11.3
Exon sequences
Seq C1 exon
GAAGCTATTGTCACCTCAGAGGAGCTTGGGCAGGACCTGGAACATGTGGAGGTCTTGCAGAAGAAGTTTGAAGAGTTCCAGACCGATCTGGCAGCCCATGAAGAGCGTGTGAATGAGGTGAACCAGGCAGCCGGCAAACTAACCCAGGAGAACCACCCAGAAGCTGAGCTCATCCTGAAAAAGCAGGAGGAGGTGAACTCCGCCTGGCAGAGGCTGAAGGGCTTGGCTCAGCAGAGGCAGGGCAAGCTGTTTGGAGCTGCTGAAGTGCAGCGTTTCAACCG
Seq A exon
GTGAGTTAAAGACCATAACATTTTTTGGGGGTTTTTCGAATTTAAAGGGGTGGTTTACTACGATATCACATTTTAAACTTTTGTTGTTGTGCAATGTAGCTTTGTGAACATAAACTACATCTCTGAATCTTAGACGCTCAAAGTTTAATGCAAAAGGATATGTTGGCTTTTACAGAGTTAGCTTAGCGAAGCCTACTGCAAACAAAGTTTGGGACTATAAAAAAAATACATCTGGGTTAATGATGTCATAAACCGTTCAGGTTACACACATACACCCCGGGCAGTGAAGGGGTGTGGCCAGAGGCGCTCTAATGTTATAACGGAGATGCTTCCTGGTGATGTGGAGCTGATCTGCAAATCACAGCACATTATGTTAGCTGACCAATCAGAGCCTCTTAAGGGCGGGTCTTTCAGAAGAACTAGAAAATATGACAGTTGTTTTAGGTCAAAGTAGGATATATGAAAAAAAAAACATGATTTTATACAAATGAAGCATGAGCACACACTGCTTTGCATGCCATAAACACAACCAAGCCTTAAAAATACCCTCTGGACCACCCCTTTAATAACTCTCTGAAGTCCACAGCATTACTATAACAATATTTCTGGCTAATGACCATTAAAAAAAGTATACCTAGTCAGAATACAACCTACTTTAAAGTACTCTAGGATTTAAAGCAACATATGACAGAAATGTAGGATACACCTGTATTGTTTATATCTTTCTTTTGGAACATCCTTATCAGTGCTTTAAATCTATTATAAGTAATAAATATTATTTTCTGTCCTGCAG
Seq C2 exon
GGATGTGGATGAGACAATCAGCTGGATTAAGGAGAAGGAGCAGTTGATGGCATCTGATGATTTTGGTCGTGACCTCGCCAGCGTTCAAGCTTTGCTCCGGAAACACGAAGGGCTGGAAAGAGATTTGGCAGCTTTGAATGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019231:ENSDART00000102251:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.168 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(79.8=88.3),PF0043516=Spectrin=PU(6.7=7.4)
A:
NA
C2:
PF0043516=Spectrin=FE(45.7=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:
ACCTGGAACATGTGGAGGTCT
R:
TGTTTCCGGAGCAAAGCTTGA
Band lengths:
352-1145
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]