DreINT0155206 @ danRer10
Intron Retention
Gene
ENSDARG00000019231 | spna2
Description
spectrin alpha 2 [Source:ZFIN;Acc:ZDB-GENE-051113-60]
Coordinates
chr21:13117923-13119732:+
Coord C1 exon
chr21:13117923-13118119
Coord A exon
chr21:13118120-13119678
Coord C2 exon
chr21:13119679-13119732
Length
1559 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACA
5' ss Score
5.49
3' ss Seq
TTCTTGTTTCTATCTTCTAGAAA
3' ss Score
10.14
Exon sequences
Seq C1 exon
CGTAAGCATCAGGAGATTCGTGCCATGCGCAGTCAGCTGAAGAAGATTGAGGATCTGGGAGCTGCCATGGAGGAGGCGCTGATTCTGGACAATAAATACACAGAACACAGCACCGTGGGTCTGGCACAACAGTGGGACCAACTCGACCAGCTGGGCATGAGAATGCAACATAACCTGGAACAACAGATCCAAGCCAG
Seq A exon
GTGACACCTCATACATCACTCTATTATGAGATATTATTAGGATTCTGTGTTTTTATTATTATTATTATTATTATTATTATATTAATAATAAATAAAATAAAAAATGAAATAAAATATTAATTATATTAATAATATATTATATTATTATTATTATATTTCTGTCTTATCTTTTATTTTTAGATAGATGTTAAAACAGATCTTGAAATGCATTAAAACATCGAGCAGTATAGTAAAGTAATAAAATACTATTTAATGTGTACTTTTTATGGTATAGTCATTTGTCTGTGTCACTATTTATAAAATATCTGTTATAAATAGTTTAAGAAATAAAGCAAATTCTTGAAATAAAAAGGTTTACATATTTTTAGACTGCGTCTAATATATAAACAGCTTACAATTTTTATATTTAATTTATTATATTTTAAATTTAATGCATCTCAAAATGATGGGGGATATTTTGAAATGATATTTTTGGGGTTTTTCTGTGACAAAAGTTAAATATTGAGAGAGGTATACAGTAATATATTGTCCATCTCCGAACCCAGGGATGTCCGAACTCGGCCCTGGACAGCCGGTGTCCTGCAGACTTTAGCTCCAACTTAACCCAACACAGCTGCAAGCATGTTTCTAAGAGCTTGATTAGCTAGCTCAGGTGTGTCTGGTTGGGGTTGGAACCAAACTTTGCAGGACACCAGCCCTTCAGGACTAATTCGGACACTCCTGCCCTAACCCCTCGTTCATTTACTCAATTATCAAAACACCAAATGAAGTATGTTAGATGTACTTAACCATAACATCAGAGAATAACTGCATACAGATGAAAAAAATACCAACTAATGAAATAATAAAAAAAAAAAAAAAAAACTTGTAACAAAAGTTGCCAGTACCAGGTGTAAACAATATTTATCTTTTATTAAATAACAGCCAGTAGGTGGCAGCAAGTTTGCTGCATCAAGTTGCGGTCACTCTGGACTTTTCTCCCCATAGACTTCCATTCAGACGCACACGAATGAGTCAGACCGGAAATGCAAGTTTGTCCGTCAAGTTTTCGCAGTTCACTGCGTTGGAAAGTTCCAGCTTGGTGATCTCTGACCTGCGAAATCGCATCACTTGTCTGCATGAGACCAATCGAGGATCAAAACATGACCTCTCTGGACAGAAATTTGACATATGGACCAATCACTGTCTTTTTTTAAGAGTCTAATAATCTTTTATTCCCGCCCCTTTTCGCAGCGGCGAAAAAAAAGTCTAGTGTGACCACAGCTTTAGTCTAAATCAGCTCTTTAATTTTGTTCAAAATGGCCGATTCATTTTTAACTGTCATTGAGAATGAATCGTCACACTCAATTAATTAAACCGATTTATTCAGTAATAATGCAGTGTTGCTCTAGGATGCTACTTTCATAAATATACACATCGTTAAAACCACATAATATAAATATAATTCACATTTATTTGTTATTTAATATTTTAACTATATTAACCCTTACCCTGATTTCATAACATATTCAACTGGATTAATTCACATTGACTGACTAGTTCTTGTTTCTATCTTCTAG
Seq C2 exon
AAACACTACAGGTGTAACAGAAGAGGCCCTGAAGGAGTTCAGCATGATGTTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019231:ENSDART00000102251:52
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.270 A=NA C2=0.263
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(56.6=90.9)
A:
NA
C2:
PF134991=EF-hand_7=PU(16.0=63.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGCATCAGGAGATTCGTGCC
R:
TGAACATCATGCTGAACTCCTTCA
Band lengths:
247-1806
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]