DreINT0155193 @ danRer10
Intron Retention
Gene
ENSDARG00000019231 | spna2
Description
spectrin alpha 2 [Source:ZFIN;Acc:ZDB-GENE-051113-60]
Coordinates
chr21:13098687-13099919:+
Coord C1 exon
chr21:13098687-13098895
Coord A exon
chr21:13098896-13099798
Coord C2 exon
chr21:13099799-13099919
Length
903 bp
Sequences
Splice sites
5' ss Seq
TAAGTATGC
5' ss Score
2.72
3' ss Seq
AATTTATGGTCTTCCATCAGGGA
3' ss Score
7.42
Exon sequences
Seq C1 exon
GATCGTTTGAAGGATCTTAATGGCCAGGCTGACAGTCTGATGGCCAGCAACGCTTTCGACACATCTCAGGTCAAAGACAAGCGGGATGCCGTTAACGGACGCTTCGGCAAAATCAAGAGCATGGCAGCGGGACGGCGAGCCAAGCTGAACGAATCGCATCGTCTGCACCAGTTCTTCAGGGATCTGGACGATGAGGAGTCCTGGATTAA
Seq A exon
GTATGCTTTACGTCATTCAGATCACACACTTTAGTTTGAGAAGGTTGGGGAAGGGGGTTGTCAAACAAGTCAACTTCATTGGTGCCTTCACACTCACAGAAATATTTTTGCTGTTCTAACTTCTTATTTAAAAAGAGGTGGAATAATACAATTCATAAGTTTTTTTGTGTACGACTTAATTGTGTTATGTTCAATCGTCTTAAATTTGTAAAAACAATAAGTTAACTTAATCGACTTGTGTTGAGAAAACATTAAGAAACAGTGCAGTGTTCGTCGAGCATTATAATAAGAAGTATCTGCTTCCTTCAGAACATCATTCAGGGATGACATTAAACCTAATAATACAAATTTCTTTTTTCAAATTGCCGTACAGTAATGAAAGGAGTTTTGAATATCAATAATTTTCAAGATATCGTATCGAAGTTAAAAATTACAGTATAGGAAAAATTCCACTGGTGGAAATTTAGCTCTTTAAGTCTTTGATAAACAGGGAAAATCAGTGAACTTTAAAATTGACACAATATTACTAGTTTATAATAACATGGAAATACTGGGTGGGGGAATTATGTAAATTTTATAATGATGCTCAAAAACCATCACAAACAAAGGGGGATAGGGGAAATTAGCAAGTGTACGCAACTAAACATATCAATGTATGCAAACTGTACATCTATTTGAGCACTATTAATAAATTATATTAAATCAAACTATAGTTCTTGCACTTCTCATACGTCAAATACGAGCTCCAAAATGCCAGCCCTTCACCTTCTTTTTTTGTCCTTGGCTGATCACATGCCTGATATTCTCATCTAACAAATGTGAAAATCTCTGAACAAATCTCTGAAATGGTGTGACTGTCTGCTTATGAGGCTGTACACAGTCTAATTTATGGTCTTCCATCAG
Seq C2 exon
GGAAAAGAAGTTGTTGGTGAGCTCGGAGGACTACGGACGTGATTTGACAGGGGTGCAGAATCTGAGGAAGAAGCACAAGAGGCTGGAGGCTGAGCTGGGAGCACACGAGCCGGCCATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019231:ENSDART00000102251:40
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.086 A=NA C2=0.171
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(47.6=71.4),PF0043516=Spectrin=PU(16.2=24.3)
A:
NA
C2:
PF0043516=Spectrin=FE(38.1=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:
TCGTTTGAAGGATCTTAATGGCCA
R:
CTGAATGGCCGGCTCGTG
Band lengths:
328-1231
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]