DreINT0046821 @ danRer10
Intron Retention
Gene
ENSDARG00000086647 | chrng
Description
cholinergic receptor, nicotinic, gamma [Source:ZFIN;Acc:ZDB-GENE-030131-3805]
Coordinates
chr2:45235872-45238396:+
Coord C1 exon
chr2:45235872-45236072
Coord A exon
chr2:45236073-45238281
Coord C2 exon
chr2:45238282-45238396
Length
2209 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGA
5' ss Score
6.8
3' ss Seq
CTTTCTTTCACCTGTGATAGCTG
3' ss Score
6.82
Exon sequences
Seq C1 exon
AGAATGGAGAATGGATGATTAAGCACCGCCCTGCAAAAAAGGTTATCAACAAGCGATACAGACCGGATGAGCTGGAGCACCAGGAGATCATCTTCTTTCTCATCATCCAGAGGAAACCACTCTTCTACGTCATCAACATTATCGTGCCCTGTGTGCTCTTCTCGTCCCTCGGGCTGCTCGTCTACTTTCTGCCTGCCAAAG
Seq A exon
GTCAGACTCTAGAACAAATGTAGACAGATGTAACTGTACTCAATAGCCAGTCTGTCTTTGTAAATGATTAGGACTACAGAGGATTCTCTAGAAAAACAAGTAAATCAAAAAGCTCTGTCCACATGAACACATTTCTACACTGTTTGGATGTTTGTCTATACAAAAATACAAAATATGTCAGCGATTTTTTTTTTTGGCCAAATGCACTGTGACATTGCAGTGCAGTTTTGCCCAACCACTGATTTTGATTGAAATGTGCGTATTATTGTGTCTCAGAGCTAATGTGACAGGATTTGCAAAGAAACTGGGATTAAAATCAGTTGACTGAAACTGAAACTTTCTGAAAACTCCGGCCAGCTTGCAGATTTTCTGAAACTCTTGGTATGGTGTGGTTGTGTGGCCACTACAACCAAAGTTTTTGCATCATGACGTCAGCATGTGGGGTGTTTTCTTTTTTTTTTACAGGCCAACATGGCTGGGAAAACACCAAACTTAGAAGACGTGATTGAGATTATAAAACATTTTCATATAATCATCAGTCCATTACCTATTGTGGTTGTTGAGTCGCTGAGTTGCTGCAGAATTGACCAGTGACTTCCAAGTATCTCGGTCAGGTGCCAGACTATGTACATTCTCAGAAATAAAGGTACAAAACCTGTCACTGGGGTAGTACCTTTTGTACCACACATACAGGTCCACATTTGTACCTTTTAAGGAAATTATTAATACTTGTAGTAATGATACACAAAATTGTTCCTTTAAAAATATTAATATACACCAATAAGATACAGAAGTGCCTCTTTTGACAAGGTACCATCCCAGTGATCTTTATTTCTGAGAGTCTATCTTCCCTTTGTGATATTGTCAACCCACTTTTTTCTCTGTCTACCTCGTTTCCTGCCACCCATAACAGTACCTTGCATATTGTTTTGGAGAGAAACGTTGGACCTGGAACAGGAAAATAGCGTATACAGTATATGCATTGTGATGGGGATAACTGAAAAACGGAAAATTCTCTCATCGTTTACTCATTCATTCATTTGTCTCAAACCTGTTTAGTTTCTTTTTTCTCTTGAACACAAAATACAGGAAGTTGTTTTGAGACATTTTGAAAACCTTTAATCATTGACTTCCATAGTATTTGTTATTGCTACTATGGAAGTCAATGGTTACTATGTCAATAGTAGCATTGATGTCTAAGATTTGTTCTAATTATCTTCTTTTGTGTCCAATAGAAAAAGGAATCAAGTTTTTCAATATTTGGAACCACTTATTCTAAATAGTGAGCACACGTAATGTGAATAGTGAGCATATGTACATTTTTGGGTGAACAAAGTGATGGTCATCCCATTTGAACTTCCTGTTTTGACAGTGGTGTGGAGGTCTTCATACTCAACAGCTTCCAGCCTGATGGTACCCACTTTTCATTTGTGATATGATTTTTGGAAGAAAACCAAAGGATGGTTCTATAGCATGTCACTTAGAGTGACTGTATTATTTGATGCTGTTTTGCTGTTAGTGTGTGTCCATGTCTCACATGCATACAAAAAGATTGAGATGATTAGTGCTCACAGAAGTCAGATTTTTGTTTTTAGGCAGATATTTATATCCCTGTTGTTTGCACTGCAGGATGGTAATCTGCCTTTGTTCTCACTTTTGCATTGACCTGTAAGGGACTTTGCCTTGTGTGCAATAGATTCATGCTAATACGCTAATTCTGCATTTAGTGTGAACCCAGCATAAGCTTTAATCATCACCTGTTGGATCGGTGAGCCCTTAAGAGTGTTTTCATGTGGACAAAGAATTTTTTTTAAGAAAGGAGGGAAAACGGAGTGACTTTACGGCCTAAGTGAGCCTGAAAATTTGATGCAACTGGGGGATAACAGGAAAAACTAGAAGAAATGTTACTGTAATGTTAAATGGTAATGAAAAACACAGCTTTGCATAATGGCATTAAAAATCAAGTGAATTATTAGGTTTTCAAGTAAGACAATCTATTTTATATCAGCCCCTTACACACAGTAATAGTGGTAAATATCTGGAAAATGTCCAGAACGATGTCACATTTTAACTTAAATAATGTGCTGTTCACACAGACATTAACTTTCTGTAATTTGTCAGCAAAAGTATGTGTGAAAGAGGCTATTGCCATTGTGAAATGGAACTCTAAACTGTTTGTGATCAATGTGCTTTCTTTCACCTGTGATAG
Seq C2 exon
CTGGAGGACAGAAATGTACTATGACCATCTGTATTCTGCTCGGCCAGACTGTCTTCCTGTTCCTTATCGCTAAGAAAGTGCCAGAAACATCACAAGCGGTTCCTCTCATTGGGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000086647:ENSDART00000123966:7
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=PD(17.7=57.4),PF0293211=Neur_chan_memb=PU(8.2=30.9)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(14.8=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]