DreINT0046779 @ danRer10
Intron Retention
Gene
ENSDARG00000017790 | chrnb2b
Description
cholinergic receptor, nicotinic, beta 2b [Source:ZFIN;Acc:ZDB-GENE-070821-3]
Coordinates
chr16:22739542-22745511:+
Coord C1 exon
chr16:22739542-22739703
Coord A exon
chr16:22739704-22744379
Coord C2 exon
chr16:22744380-22745511
Length
4676 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGC
5' ss Score
7.47
3' ss Seq
TCTGTCTCCTCTCCCATCAGTGC
3' ss Score
10.2
Exon sequences
Seq C1 exon
ATGAATGAAAATGCTAATTAAGTCTACCGTGGTTGTTTATTTTCATCTTCAGGAATGGCAGGACTACAGACTAACATGGAGCCCAGAAGAGTTTGATGGCATGAAGAAGGTCCGTCTTCCCTCCAAGCATATTTGGCTGCCTGATGTTGTTCTTTATAACAA
Seq A exon
GTAAGCCTCGAAAGATCATGTTGCTTAGCTTTCTCTACAACTTATCGCTGCTTTATTACATCTGATCCTTTCTTCCTTTCCTCTTTCATCGAAGCGTAGATAACATCTGTGCTTATCAGTCTCCGTCTCATTAGCGGTGTTCCCGTGTCACATTACATGACCTCACTGTAAATAAAGCATGTTCCTGCTCTCTTGCTCTCATGCCGCGTAGTGGAAGATGATTTATATTTAAGCTAATTAAAACAATACTTCCTCCTGTGTTTGTCTTTATGTATCATTGATAAACTGTGTGCAGATAAACACCGCAAAGAAACAGGCCTCAAAGGTTTGAAAATTGTCTCAAAAAAAAAATTCTGTACAGCAGTAATGTTATAGGAATTATCTAAAAAAAGTAATATGCCTTTACCAAATGCCTTAACCTACTGTAAAAGTTACATAAGGCACTTACATTTGAAGTAGACATGGTCAGGCAGTAAAGACACACCATGCTATACATGCAAACACAATTGAATTACATAAAATCTGGTTAAAGTTAAATTACCCAAATTTTTAAGGTCACTGGTTTAATTCACAGCAAATGTGGCATCAGTTAAAAGTGCAAGCTTAACACCATGTCTACTTCAGACACAACCATGCTGCTTAAAGGTGCAGTACGTGATCTGCCACAATGCTAACTGGCTAGCATAAATCTCTGAAACACTGTCCCTACCCTGCCATCCAAAGCCACGCCTCCTGAAACACGAGTACGTGCACCTCAGGAATTATACTTACTACCAAGCCATACTTATATGCTATTTCAGACTAAATATTCAGAGTAGTGGTAAATAATATAGCGAGCACGTCACAGGTTGTCATGTTCAAAAATTAACCATTGTGAATATAAAACCAACTTCACCTCAGTAAAGCAGGCTAGGCGGAATAGAAAAAGGTTCCTTAGGAAACAGAAAATAGTCACATCAGTCTTTTACCGGGAGATTTTAGTGGCTGAATTACACTTCTGTGCATATAACCCATTTTTAACAACAAAATCTACATCAGCTTGGCGTTAAGCTAACATAGTTTTAAAACAAAACATTATCTAACAGAAATACTTCAGAAATACTTCAGCCATGGTGTCATCCTTCGTCATCCTTCGTCCAGCATGCAAAAGTCACTCCAATATTGATTCAGGATTTTAAAAAGTATTGATTTTAAAAAGTATTGTACACGATCTGCATGAGCGGCTGCACTATAGTTCGAATCTGCATTTGCTGCAGTTTGAGCTACTTATCAGAATTATGCGAAATGTCAGCCTGACACTATTTGATTGGCTGAACATTTTTTAGTTATATGGCTTACTCAGAATATAAAAATAAACATAAACACATTTAGATCATTTACTTTAATCATTACGATTGGAATATGAAGAGACTTTTAAACAGCACAACAACAAATGTTACTGAAGAAAATCACTTACTGCACCTTTAAAGAAGTGTTTCTCAATTCTGGTTCTCGCACCCCACTCCACTTCACATTTTGTATTTTTTTCTTTTCACTGTAGACAATTAGTCCACAGGATGTTCTGCCATGATTTCAGCTTTAGGAAGCATATGTTTTATTCAAATGTCATTTTAGTGTGTGATATGTGGATTTATATTGTAATTATTTACAGAGGTATACTACTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATTAGAAGATAAATAAAGGTTTCTTGTGTTCAGGTAGAGAGCAATGAAGGAGCATTGAGTATAGAGCAATGCTCACTATGTAGGGACCTGTCAATTAGAACACAGTTCATGCATGGAGCGTGAATTAGGTTTGAAAAAGAAGAGAGACAAAACATGTAGATTTGTGGGACACGAGAACTGGGAATGAGAACCACTTGCTTACATCACATCAGCTGCCTATACTAGAAAAATTGCCTATAGCAACTAACTTGTCCTTTATGTTAGTATATCATAAATCAAATGAAATCTGTATATTGTCTGAGATTTGTTGCATGTGTTGCATACTGTAAATTAAGTGTAGACAGATTAAGTCTTTCTGGATTATATTGTCTTCACTTGTGTCCAAAGTAGATGGTGTAAGCCTACAACATCACTACATGAAATACAGTTAACCAAGTCAAAGGGAATATGGAGTTATTTTTCTTCCCATTTGCAATGCTTTTCTCATTTACAATGCAATTAGAGTGAGTAATATTCCTTTACTCACAGTTAAATGTGATGTTTACAACCACAGTAGCACAGGGCTAAACACACTTTGCAAAGCCTTACTATGTGTACAGGCACACCAAAATGATACAGCATTAGTAATGCTTAACCAAATCCACCTCAAAAGTATTATGACTTTAAAAAACTGGTAATGACTAATCCCAGTCCTGGAGAGTCACTGTCCTGCAGAGTTTCTTTCCAGTTCAAGACTTATCAAACACAGCTGAAAAAGCTAGATAAGGTATAAAGGTTTCATGGGTACTTTTTAAAGGGTGGAAAAAAGCTTTCCGGTTTGTGACCACTTATATAGTCTCGCGTAGGCAGACCTAAGACTGAAGAGGTCTGAAGATTTGGGATCTTTGGCTGCTTTGAATGGTCAAGGACTGCCCATTATGTTATATGACTGACAGTTTACCAACCAATCACATTTCATTTTGTGCCACATCATGTTTGTAGGTGTGGAAGTGTCCTCAGAATAACACCCCATAATGCAACCACATTCAATAATCCAGCGTTTAGGTCAAATTAATAAATGCTCATTCTTACAAAGTTATTCTCACAATAACAGATGGGTGTGCAAGGAGTAAATCACTAATTTATGACCTTCTCAGAAAGTTCTATGCAGTGTTGGGGGTAATGCATTACAAGTAATGCGAGTTACATAATAATATTACTTTTCTAAGTAATGAGTAAAGTAACGCATTACTAAATAACAAGTGTTATTACTAAGTATTATTATTACTAAGTATACTAAATATCATTATTAAGTAATAAAATTTGAGTTACTTTTTAAAAAATGTAATACAAGTTACTTTTTAATTAGATCATAAAAAAATAAATCGCTAATTTAAAATGATCGTAGTCATGTTAAATCCTACAATCAATGAGAGAATGCAAGAACAAACAGAAACCAAAATGGCTTTGGCTTACTGTATTCTCATTTTCTCATTATTTTGAATGGATTAAAGAAATGCAAAAGGACAGAAATGTCTCAAAAGACAGTGATTTTACTTCACTAATAAGACAAAAGGTACAAAAGTAGCACATTGCTTAAAACTTTGATAAATCTGTATGGCACATAGCTTGAGGGTCAGGGAGTGCTCAGAACATATTATCCTACATTATTATTATTATTATTATTTTTTTTTTTTTTTTTTTTTTATTATTATTTAAGTAAATGAAGCTCATTTGGTGCATTGTTTATTGCAGAGCTCCTTTATTTAGAAAAAAAAAGGAAAATATCCTGAGAGTTATGAAAGAGATCAAGCCTCAGCCAGGTCAGAAAAAGTAATGCAAAAGTAACATAATGCATTACTTATTATAAAAAGTAAGTAACGCAACTATTTACTTTTTTGGAGAATAACTCAATATTCTAATGTGTTACTTTCAAAGTTACTTTCCCCAACACTGGTTACCAACCCAGGCTCATTCTGAAAATGCACCTCTATACATTTTTGGAGATCACCTAATACATTTTAGGAGGTAAGTTTTTTTTTTTTTTTTTGCAGTATTTGTTTTCTTGAATCCACTAGAGGCCGCTGTGTATGCTTTTTGAGATCTTTGAGAAATTTCTCTCGAGAGTGCCATTCGCACCTGCTGTTCTCTCGTAAATCCACCAGAGGCCACTGTCTACAGACTAATTGACAGATAAAATGACTGACTGACTGATCGACTGACCCACCGTCCCCCTTTTCTAAACCCAACCAATAGTATTTTAAAAAGCACAGATTGACCCGCCCATTCACTTCTCTAAACATAAACCAACAAATTTAAAAGCAATTTTCAAAAAATCAAATCTGATTTTTACCACTTTCTCACCTGTTATTTACTTATTTTACTTTTTGGCACTTTGTTTGCACTTTATTTGCTTACTGGAACTATTCTTTACTGGACTCAAACCCCTTTGTCATGGCCACTTTGTCATACCACCCCGTAGAATTCATTTAAAAAATAAAATCCAGCCATACGTATTTCTGGCTACATAATTCGCAGCCTCCAGAAATGTACAGTATATAGGGCTACATTTTCAGAATGAGCCTATGTTGCTGGTTACATATTCATAAATAAGCACTGTCCTCAACATGAACAATCACAGCATTTATATTTGCTTAGACTTGTTTCCAGGAAGGCAAATTAAGATTGCTACATGGTGCACACTCAACTCTCACAAGCACATTACATTGAAACCAATCAGAGGATGAATGAGGGTCTGTAAAGTGTTTTCAGAATAGTTTGGCATGTGCATCAGACATATAACCAAAGGTCCATGTGTGGTGTTCAGCATGACGCCTGAGGCTGAGAATACCACTTAAATTATGCCAGAAATGCTGTTGATAAACCTTCTTTTCAATTATTAAGCACCTTATAACTTCTGTCTCCTCTCCCATCAG
Seq C2 exon
TGCTGACGGCATGTATGAGGTGTCATTCTACTCCAATGCTGTCGTCTCCTATGATGGAAGTGTCTTCTGGTTGCCACCAGCGATCTATAAGAGTGCCTGTAAAATTGAGGTGAAGCACTTCCCATTCGACCAGCAAAACTGCACTCTAAGCTTTCGTTCCTGGACCTATGACCGTACAGAAGTGGACTTGGTTCTGCGTGCAGACGTGGCAAGCATGGATGATTTCACACCCAGTGGTGAGTGGGATATCATTGCTCTTCCTGGCCGTCGAAATGAGAACCCTTCAGACCCAACTTACGTAGACATCACCTACGACTTCATCATCCGCCGAAAACCCCTGTTCTACACAATCAACCTCATCATTCCTTGCGTCCTCATCACCTCGCTGGCCATCCTGGTGTTCTACCTGCCGTCAGACTGTGGCGAAAAGATGACGCTGTGCATCTCGGTGCTCCTTGCCCTCACTGTGTTCCTGCTGCTGATCTCTAAAATTGTGCCCCCCACTTCTCTCGATGTCCCTCTGGTTGGGAAGTATCTGATGTTCACCATGGTGCTGGTCACATTCTCCATTGTGACGAGTGTGTGTGTGCTGAACGTGCACCACCGGTCGCCCACCACACACACTATGCCTCCGTGGGTGAAGTTGGTGTTCCTCAACAAGTTGCCTGCTCTTCTCTTCATGCGGCAGCCGCGTAACAGCAGTGAACGACAGCGTCTGCGCCAACGTCGGCGTGCCAATGAACAGCAGGAAGGTGGGCGAGGGGGTCTGGCTGCCGGGCTCATGGCAGGATTGGGTCTGAGCGGCTCTTCATCAGGGAGCAAAGAGAACAATGAGGCTTGCACATGCTATGTGAACCGGGCCTCTGTGAAACAGTTTGGGGCAGAGTTGGGTGGAGGGGGTGGTGGAGGTGGGTCAACAGATGGACTAAACGGAATAAGAGAAGGGGGCAGAGAGACCAGGGAAGGAGGTGCAAATCCATTGCAGGGATCTGCTCTACCTCGGGGGAAACAGCAGCCCCCTACTGTCCTCACTCAGGCTCTGCTGGCCCAGGCCTGTCCAGGGTTTGAGGAGGCTGTAGATGGAGTCCGCTTCATCGCAAACCACATGAAGAGTGAGGATGACGATCGTAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017790:ENSDART00000143043:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.183
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PU(29.8=90.6)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(54.4=29.6),PF103294=DUF2417=WD(100=39.2),PF0293211=Neur_chan_memb=PU(88.7=68.3)
Main Inclusion Isoform:
NA
Other Inclusion 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]