DreINT0046716 @ danRer10
Intron Retention
Gene
ENSDARG00000057025 | chrna2b
Description
cholinergic receptor, nicotinic, alpha 2b (neuronal) [Source:ZFIN;Acc:ZDB-GENE-041001-99]
Coordinates
chr20:19919580-19923098:+
Coord C1 exon
chr20:19919580-19919689
Coord A exon
chr20:19919690-19921948
Coord C2 exon
chr20:19921949-19923098
Length
2259 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
AACGCTGCTGTCCTCTTCAGTGC
3' ss Score
8.76
Exon sequences
Seq C1 exon
GAATGGAATGATTATAAACTGCGCTGGAAGCCTTCAGACTACGACAATGTGACTTCCATCAGGGTTCCATCAGAACTCATCTGGGTTCCGGATATAGTTTTGTATAACAA
Seq A exon
GTGAGTAACCATCCATCTAAGACAGTGATGCCCAAACTAGGGCCGTAACATTTGATTTGGTCTGCCATCCCATCTAAAAAGAGAAAAGGAATGATGGCCATGGATTAGATGTTGTCATTTCAAATCTAATGTAACATTGTTTGTTTGTTTTATTGTTAAAAGCTACAGAAATTAATTAAATGATGTAAATGAATTAGATTTAGTTTAAATGGACAAAAATAATTGTGATTGTTTATGTTTAAATTGCAATAAGTTATCATTTTTAAATGTTATACTGTATTAGTTCATATGACTTAAAGAAATGTTTTCTATTGGCGTTTAAGTCTGAAATAAATTAGGAAATACTCATTGCAACTTCAATGTAATATACAGTACCTTGATATATTTAACTTTGGCCCACGACTAATGATATTCAGCTTTTGGCCCTTTTTACCAATAAGTTTGGGCACCTCCGATCTAAGCTAAACATCATTTAGCATCAAGAAAAGCCAGAGGGAGAGATATTAAATATGTAATGGAGTGTAGACTCTTGTGAATTTGGGATGTCGACTCTCAGAAGCACAAGCAGTGGCAGTTGGAGCATTGGAGTTGTTCTTAAACTGAAATGAACTCACACACTTCTTTAAACTGCCATCTGCTGTTTGAATTTAGTACTGCAACTGCTTAGGCATCATTTCAGTTTACATATCAGTTTGTATACAGGCCTGTAGCCAGCCTGGTAAAAGGGGTGGTAATTTTTTTCTCAAAAAGTGGACCCTTATGCAGTTATAAATCTAATTTTCTATTTAATTATGAGATTTAAATTAGTGTCATTTTAAGCAGTATTTTTTATTTTTTTTTTTTGCTGCTGCATTTGCTAGTCAGATGGTCATCATAACCACACTTTTTGATATACCCAAGAAAATTTAGAATAAAAAAATGTGATAAAAAATACTTAAAACATACACTTATTACATGATGTATCATTAGAAAAAAAATCTGTTAAAGTTTTAAATTAAAAACTGTAGTCTTTATGTTTAACAGAGCGATGGCATTTTCACATTATGTCTGATACTATTTTTTTTTCTGGAGAAAGTTTCATTTTTTTAAAACCATTTTAAGAAAAAATTATTAGCCCCTTAAAGCATTTTTTTTCAATGGTCTACAAAACAAACCATCATTATACAATAACTTGCCTAATTACCCTAACCTGCCTAGTTAAATGTCACTTTAAGCTGTATAGAAGTGTCTTGAAAAATATCTAGTAAAATATTATTTACTGTCATCATGGCAAAGATAAAATTAATCAGTTATTAGAGACGATTTATTAAAACTATTATGATTAGAAATGTGTTGAAAAAAAATCTTCCCTCTGTTAAAAAACAGGTGACCTAATAATTCAGGGGGGCTAATAATTCTTACTTCAATATATGATATATATAGCCTTTTCTTAGAGGCAAAAAACAAACTGGCCAGCACATTCACCTTTCCTTAGTCAGAATTTGGCCATTATAATAGAAATAAATATTACAACATAATAATAATATTAATAATTATAATAATGTAGAGCTTTAAATTTTTCATAGCTTCTCGTTTAATAATTTGATCTGTCAAAATATTATATAATAATAATAATAATAATAATAATAATAATAATAATAATTATGCACATTTATCAATAAGTATAGCAAAACCAGTTAATTTTGACTTTGTGGGGACATTTTTTGTCTCTTTAAAAGAATGAAAATGTAAAAATGCAGATTATTTCCTGTGAGGGTTGGGTTTTAGGGGTAAAGGGACAGAATATACAGTTTGTCCAGTATAAAAACGATTACGTCTATGAGAAGTGTCTACAAGCGTCTGCTAAATGACTAAATGTAAATGTGTGTGTCTGATAAGAAAAAAATTATTTTTGTCAAATACAAAATTTCAACCCTAAAGTCCACACGTAAACACTACAATAAACAGGTTATAACATTTTTTTTGTTTATTTACTCACTATCATACCAGTTATTTATTTTTTATGTATATCATTTTAGTAAAATAACAAAACTATTTATAAAACAGCCATTATTAAACTCATGTAAAGCTGTTTGAGACATAATAATAATGCTTGTGCATTACATCTTCATCTATTATATCAGTGTTTGTAGTTAAAAGTAGGCTAAAAAACTTTTATCAGCTACTCGATTAATTGGTGTGTTACATAATTTTAAGTAATTAATAATTGTAAAAATTTAAAGTTGCAACTGACCAAATAAACGCTGCTGTCCTCTTCAG
Seq C2 exon
TGCAGATGGGGAGTTTGCGGTGACCCACATGACCAAAGCCCACCTCTTCCACACAGGTAAAGTGCGCTGGGTTCCACCTGCCATCTACAAGAGCTCATGCAGCATCGATGTCACCTTCTTCCCCTTTGACCAGCAGAACTGCAAGATGAAATTCGGCTCGTGGACTTACGACAAAGCCAAGATTGACCTAGAGCGAATCGAGAACACAGTGGACTTGAAAGATTACTGGGAGAGTGGAGAGTGGGCCATTATCAATGCTGTAGGCACATACAACACCAAGAAGTATGACTGCTGCCACGAGATCTACCCAGACATCACCTACTTCTTCATCATTCGCCGTCTGCCGCTCTTCTACACCATCAACCTCATCATCCCCTGCCTGCTCATCTCCTGCTTGACTGTACTGGTCTTCTACCTTCCGTCTGACTGTGGTGAAAAGATCACTCTGTGTATTTCAGTCCTCCTCTCACTCACTGTCTTCCTCCTGCTTATTACAGAAATCATCCCATCCACTTCGCTCGTGATCCCACTCATTGGTGAATATCTGCTTTTCACTATGATCTTCGTCACTCTGTCCATTGTCATCACCGTTTTTGTGCTCAACGTCCATCATCGATCACCGAGCACTCATAAGATGCCCTGTTGGGTTCATTCGGTCTTCTTGGATTTGATCCCCCGATGGCTGTTTATGCGCAGACCAGCACCTGACAGCCGTCGCAGACAGAAACTCTTGCTTCTGCAGCGACAGGTGCCAGGAATGACAGCACGACCCGCAAACGCTTCCCTCAGTACATCTACTAGCTGGTTCAGAGGGCAGAACTCTGGGGAGGATGAGTCCTGTAGGCACTTCAGTTATAAGGACTTAGAACTAGGGACACTATCTTCGGCCATCTCACTTTCGCTCCAAGCCAGCTCGCCATGTCCTCTTGGCTTAACTCCGCCTCCTCTACAGAAATTTGGCCCAGCCCCTAGACTTGAGGTGGGCACGGCTTCCAGGCAGCTCAGTGGAAGAGCTAATGTTACAAAGAGGCTTGACAACATGATACCCCATGACAACCCAGGGTTCCCTCTGTCCCCCAGCGTCCTTCAAGCTTTGGAGGGGGTTCACTATATTGCAGACCACCTGAGAGCCGAAGATGCTGATTTTAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057025:ENSDART00000136317:4
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=0.013
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(17.4=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(55.6=29.9),PF0293211=Neur_chan_memb=PU(88.8=68.0)
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]