DreINT0046714 @ danRer10
Intron Retention
Gene
ENSDARG00000057025 | chrna2b
Description
cholinergic receptor, nicotinic, alpha 2b (neuronal) [Source:ZFIN;Acc:ZDB-GENE-041001-99]
Coordinates
chr20:19916882-19919423:+
Coord C1 exon
chr20:19916882-19917033
Coord A exon
chr20:19917034-19919378
Coord C2 exon
chr20:19919379-19919423
Length
2345 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGC
5' ss Score
8.15
3' ss Seq
CTTATTTCTCTCCTCCCCAGGAC
3' ss Score
11.59
Exon sequences
Seq C1 exon
TTTCTTGTTGTGAGAAAACACATTCTCATGCTGAAGATGAACTCTTTAAAAAGTTATTCGATGGCTATAACAAGTGGTCAAGGCCTGTACCCAACACCTCTGATGTTGTGATTGTCAAGTTCGGTTTATCCATCGCCCAGCTGATTGATGTG
Seq A exon
GTAAGCTACTACCATCTTGCATGGAAATGTAGAATAATTTCAACATGCGAGCATGATGAATTCTAACTCTGTCATTTAACATAAATACGATTGACATGTATACTAGACTTGTATATTGGCTTAAAAGTACTGTATGTGTGTGCATCTGTATACTGTAGAAAAATAATACAAATTTAAATTCATGACTGCAGTATAATAATTTACAATATTAAATTAAGTTAACCATGTTTTACCAAAGAATACACAAGTCTCAGTGTAATGACAGTAATTGAATCAACTTAAATGTTAAAGCAACACATTTTACCATTAGTCCAGTCTTCAGTGTCAAACAATCTTTCAGAAATCAATATAATATGATGATTTATGTATAGGTAGTTCAAAAGAATGTTCGAAAAGCTTGTAACGGTGGCAATGTACAAAGTCAATATTTCTTATAAACAACAAAGAAAAATAAAATAAAGTAAAAAAAAAAAAAATTCTTTGCCGAGGCGGGATCCGGACCCTGGTCTCTTTTGTGTCGGGGCTCTGCGACGTACCCACTCGGCCACATGACTCTTAAAAAATATTCTTGCCCACAGCAGTGTTGCCATACACCAGTGCACCCCGGAAACAAACAAAAAAAAGTATTATCGACTTTTGCACTAAACAAATGACTTTGCACTAAAGATTAAAGTAAAGAATTGTTCGGGTGCCAGACAGGATTGATACCTGTCAAATTAAATATAATAAATTATGCCCAGATAACCATCCGTTACACACAAAATGAAGTGAAATAAATTATCAAACAAGATTCAAATTTAACTCGGGTTATATTTCAAACAAAACAACAAATCACAAGGAATATTAAATTAGCATCTGTAACAGTGAAGACTTAACAGTCCCGTCCAGATCAAAAACAAAGCACAAACAAAAATAGATAGTTACGCATCAACAAGCAAAACAAAAACTACTTCAATTGTATAATTTGAAAACAACAACAACAAAAAACAAAGAGGGGAAAACAAATCAATACTCACACAAGGGAACTGAAGCTGTATTTGTATATTACTGTTACTGCGTTACTGAACTACTAATACTTATACTGTATGTCATAACTCAATATGTCTCATATTGCAATAAAGATTAATAAAAGTTAAAAATATATACAGTTGAACTCAGAATTATTAGCCCCCCTGATTTATTAGCCCCCATTTATTTTTTCCCCAATTTCAGTTTAACAGAGAATTTTTTTCTACACATTTCTGAACATAATAGTTTTAAAAACTCATTTCTAATAACTGATTTATTTTATCTTTGCCATGATGACAGTAAATAACATTTTACCAGATATTTGTCAAGACACTTTTATACAGCTTAAAGTGACATTTATAGGCTTAACTAGGTTCATTAGGTTAACTAGGCAGGTTAGGGTAATTAGGCAAGTTATTGTATAACAGTGGTTTGTTCTGTAGAATATCGAAAACAAATAGCTTAAAGGGACTAATAATTATGACCTTAAAATGCTTTTTAAAAAATTAAAAACTGCTTTTTTCTAGCTGAAATAAAACAAATCAGACTTTTTTCAGAAGAAAAAATATTATCAGACATACTGTGAAAATTTCCTTGCTCTGTTAAACATCATTTGGGAAATATAAATGAAAATTAAAAACTAAAAGGGGGGGCTAATAATTCTGACTTTACCTGTATATATATATATATATATATATATATATATATATATATATATATATATATATTCCACAATTTTAGCCTACACTTCAAGTACACTACAGGTCAAAAGTTTTTACAGTGATGTGACTGGAATAATAATGCTCAAGATTCAGCTTTCAATCACAGGAAAAAATAAAATACATAGTAAAATATGACAGCGTTATTTTAAATAGCTAAACCTTTTGAAAATGTCACTGTTTTAGCTGTATGTTGGATCAAATAAATACACATTTGGTGAGCAAAAGGAAAACTTCTTTAAAAGAATATAATAAAAATGGTAGTATAAATCTGTACATTGCCAGTTTTTAGTAGTATGTTAGTGAAATGCTTTTTAAAGCATTGTAAGCATGATGGTGTGCATTGTAAGTATGATAAATACAAAAACAAATAACAAAAAATAACAGTTTTTTTTTTCTTATAGATCATTTCTTATAGATCTTTTAACATGAACTTTCTACAGGGTCCTAAATCTTAAAATCTTGATAAACTAGAGTACATGGTCTCTCAAGTCCATCAGAAGATTAAAATTATAAGGTTCTTGTGACCTTCCTGAACCAAAAGCATTCTGCTGGAGCAAACCCAGCATCCTGACTCATCTAATACTATCCGTCCTTCCTTATTTCTCTCCTCCCCAG
Seq C2 exon
GACGAAAAGAATCAGATGATGACAACAAACGTCTGGCTCAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057025:ENSDART00000136317:2
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:
PF0293118=Neur_chan_LBD=PU(18.8=76.5)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(6.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]