GgaINT0065214 @ galGal4
Intron Retention
Gene
ENSGALG00000015382 | CHRNA6
Description
neuronal acetylcholine receptor subunit alpha-6 precursor [Source:RefSeq peptide;Acc:NP_990695]
Coordinates
chrZ:53430822-53435522:+
Coord C1 exon
chrZ:53430822-53431809
Coord A exon
chrZ:53431810-53434647
Coord C2 exon
chrZ:53434648-53435522
Length
2838 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
TTTTTTTTCTTCTCTTACAGGTG
3' ss Score
14.56
Exon sequences
Seq C1 exon
TGCTGTGGGAGATTTTCAAGTTGAAGGCAAGACCAAAGCCCTTCTTCGCTACGATGGGATGATCACCTGGACCCCACCAGCTATATTTAAAAGCTCCTGTCCCATGGATATTACTTTTTTCCCATTTGATCATCAGAACTGTTCATTGAAATTTGGTTCTTGGACTTACGACAAAGCCAAAATTGATCTTCTGATCATTGGCTCCAAAGTAGATATGAATGAGTTTTGGGAAAATAGCGAGTGGGAAATAGTTGATGCTTCTGGCTACAAACATGACATCAAATATAACTGCTGTGAAGAGATCTACACAGATATAACATATTCATTTTATATTCGAAGGCTGCCAATGTTCTACACCATAAATCTGATTATTCCCTGTCTCTTCATCTCATTCCTGACTGTGCTAGTTTTTTACCTGCCATCTGACTGTGGTGAGAAGGTGACTCTTTGCATCTCTGTGTTGCTTTCTTTGACTGTATTTTTACTAGTGATCACAGAAACAATTCCATCTACCTCTTTAGTAATACCCCTCGTAGGTGAATATTTGCTCTTCACTATGATATTTGTGACTCTCTCCATTGTCATCACCGTGTTTGTCTTAAATATACATTACAGAACTCCTACTACACACACAATGCCCAAATGGGTGAAAACTGTCTTTCTTAGCCTGCTCCCCAAAGTTCTGTTGATGCAGCGGCCTCTGGAGCAGGAGAAAAAAAACATCTCCAAAAAGACCAAGAAAGGATCGGCCAAAACATCAGGCAAATCAAAGCACAGCAAACACAAAGATAACAAATTACATAAGGAGCAACGGTGTTGTCACTGTGATAAAGCAGACGATCTCACCTCAACCAGAAGAAGTCAACTGAGTCATCAGTCACTGAAATGGATGGCAGAGCACACAGAGTACTCCCCAGAAGTGAAAGATGTCATCAACAATGTTCAGTTCATCGCAGAGAACATGAAGTCTCAGAATGAAACCAAAGAG
Seq A exon
GTAAGGGAGGTAGCCAGCAAGTTGGGCACAAGGTCACACTTGCAGCATTCCATGGGAGAATAGCGAGCAAGGCAAACAACTGTAATGTAGGGTGGCAGCTCAAGGGCACCGGAGCTGGTATGTCTAGAGAAGAAACTTTTGAGTCCTGTGAACTGGTCAAAGTTTCCTTCAAAATGGGAGAGGCCAAATCATGCACTGGGGATGGAACAAGAATAGTGATCTCACCTGTTCCTCCTCTATCCCTGGTGGATAATTTGAGCAGTAAGATAGTTTTAGATCGGTCATGAGGATGACCATTCTGTGTGAAGAGGAGGAGCCACTGCCATGGGCCAGGGGATAGTCCAGGTGAAGCTTTTGAAAGAGTCTTCTAACCCTACTTCTGTGATTCCTCAGAAGGGACTGTTCTGAACTGCTCAGCCCTGGTGAGCAGCGCTGTCACTGTAACAAAAGCACTGTTAGCCAAGCAGGGTGCTCCTCTGCGTTAGTAAAGGAACAAACAACCTGCTACACAGCTGGCGTTCTGGAAAGGAACTCTTCTCAGCCAGTGACAAATGTGGTAGGGATATTCCTTTCCTGTTGCAAGTACTGTGCTTCAGTATGGTGTTTTTTGACAATTTTTCATATTTTTGCAGTGAGAAGCACTCACTGTGCCTTCAGTGAGACAGCATTGCTAATTCTGAAATAAAAGTTTTGAGTTTGGGGGAGGCAGATAAAAACAGGCAACAGATGAATAAGATCACACACACACAGAAAGACTCTTTAATTAAAAAAAAAAAAAAAAAAAAGAGGATTGTCATTTGAACTTATAGATTAGCTTTTGTGAGGCTATAAATGTTTCATCCTAGCTGGGATTGCTGTCATAGAAAACGATGCACACTGGAATCTTAAGAATGCCGGAGCCAATTCCTTGGGTGTAAACACAGAACTAGAAGCAGCTCCAATAAAGATTATCTCACATAAGCACTTGCCAACGCCTCATAAGGAATTAAAACTCTTCGACACTTCAAGATGTTTTTTTTTTTAAGGAGTTTTGACCCTAATGAAACATTTACTTTTGCTCTAACTTTAAATGTTGGTGCTTTTTAGATGCTATGAGAAGACAAATTCCATTTCAAAACGAAATGCTACTGTATTTCTATCCAAAAAAAGCTAATATTTTGCAAGATAATTATTGAGAGATATTCTTTGCTAGTTGAAACCAGCACCAATTTATGCAATTTCAATGCAACCCAAAAATTCATTTCCCCCCCCCTCTTTTTTATGTCCTGCAGAAAATTCATCTGAAAACAAAGTACATAACTTTGAATAATGGGCTACAGTTAAGGCCTGGTGACTGAATTCATAGGATGAGACCAAAGAAAAGCACAGGTGTCCAGCAGTACAGAATAAGGCAGGGATTGAGCTGAGTCTTGCTTAGTAACTATGCCCCTAATGCTTTGCTTCACCCCAGCACTTCGGCCCTGCTTTCAGCGCCACAGCAGCAGAAAATATACCCTTGTACTGTATTCAGCTTATTTCTTCGATGCATTCCAAATAAGAGGAGACTTTGTGTGAAGCAGTTCAAGTAATGTGCCACTTCGATTATACAGCTCATGATAAGTCTTTCATTTCCAGTCACGCTGATTCACATTTTGCAAACCTCTCCTGCTGCATGCAATTGTATTCTTAGTCTGACGTGTGCATCAGCAGCTCTGTATCTCACCTTTTGCAATGCACCAAGGATTGGAAACAGGACTTTTCATGTGAGAAAAATCCTTTCTCTTGGGAAATAACTTGTTTTGTTCTCCAACAAGCACTGAGGAAATGATTCTGGAGGCTTCTGCTTTGTTCAGATGTACAGAGCTATGTGCATGCTGCTATGGACATGTCCCATATGAATAGAAGCCCTTTAGAAATGGCAGGTTCATTGGGGTTGAAAGGAATCTCCAGTCCAACCCCCTGCTAAAGCAGCTTCCCTGCATTAGGTCACACTGGTAAGTGACTGGAAAGATCTTGAATGTCTCTGGAGATTGTGGAAGCACTTATGAAAATTGTGGAAGCACCACTGTAGCTAGAGTTCGTGCTGTATGTCCTTTCAGAAGAGCTACAGCAGTAATCTTCTAGAGGAAAACAAGTGGAGAGAACTCTTAACTCAAGCAAGGGACTCTTTACCACTCGCTGGTTTTATGTGAGTGAGTGCTCTTTGATGCAGTGGTCCTCAAGCACAGGCATGGTTTAAAGGACAGTGACTTCAGTGCATATCTCTGAGACTTACATTCACTCTAGCCTGCTCAGCACATGGCACTGCTTTGCTCAGACAGGATGTTTGCTTTTCTAATGCTCATGTGCTCAGCTGTCCATTTCATTGGCGGCAGTGAGTTTAACTGGAATGGCAGTGTGGCCAGCCATGCCAGAGCAGTAGGCTGTCTCATATGTGGGCAGCCAGACCAGATCCTTTGGCAGGATTCAGCCGTGTGCGGCTGCAGTGACTCATCCTGCTGCCACATCACCTCAATCTACACCCATCACATGGTCTCATTCTATTTGCTATTGTCAGACACAGCCATAGTTTGCCAACTGACTGCAATACTCAGAAAAAAAAAATCAGTAGAAGATCAGGAGAATGTTTACTGTTCTCAGCCAGAAGTTATAAATACTGTTAAGAAAACAGACTCCTCTTAAGACACTTGAAAACTGCAACAGCTATAAACACCACAAGCAATGTTCCTGCCAGGATGTACGTTCTTCCTTGTTCAAAAGCATGAGGGACATTCTTTACCATTAAATGTTAACTCACAATTACATGTTACATTACACATAATCTATCCTTTATTATTATTTTTTTTTCTTCTCTTACAG
Seq C2 exon
GTGGAAGATGATTGGAAATACGTGGCTATGGTGATTGACAGAGTATTTCTCTGGGTGTTTATAATCCTTTGTGTGTTTGGGACTGCTGGATTATTTATCCAACCACTAATAGCAGATACATAACTTGAGTCATAGCTTTTTTTTCCACTTACGTTTGTATTCCATTTTCAGTTTGGAACTGTCCCTTGTATTTCTCTCCTCTTATATCATCCCTCAGCATCTAGCCCCACTGGGAAGGAGAGAGGGGAAGACTCCTCTGGGCAAGCAACAATCTAAGGCAGAATGAGAAGGGAACTGAAAATGTGAGATTGAGCTTGTGGTCTCTCTAAGACAGAGTGGCTGAGATTTACAGAGTGCCTGTCTGTCTGCTCAATTCAGTAGCAATTGCACCAAGAATCACTGTAGTGGGCAGAAAATACTGAGCTTCTCCCATGGTTTCAGTTCAGGGGGCCACTGTGAGTGATTTGTGCTAAGAGAACAAAAGTCTCACTTTTCTTTCCTCATCACAACTCTTACATTTCCTCTTTCTCCCCTTGTACAATGCCTAGATTTCAGCATGGCGCTTAGCTGAGGTACCGCAGTCCTACTGACTGAATCAACACTCTTTACTGTGCTTTTGGAACAGGGCAGACAAAAATCCAAATAAAAGTACAATCAAACCAATCCCTTGACTCTGTAATATTTTATTACAATCCCCGTTTTCTATAACACGTGTACACAAATGAGAATCTGACATGAGCAGCACGTGTATTTAGTTTTATGCTTGAAGTCCAATAGGTCTTAAGCACCCCTCCATAGCTGACGATGAACCTGCTTTATACGTTGCAGTGCACAGTCTTGCCAACGTTGTTTCGAGCATGTTCGAGCACTGTTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015382:ENSGALT00000037792:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.079 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PD(55.6=34.8),PF103294=DUF2417=WD(100=48.5),PF0293211=Neur_chan_memb=PU(86.2=62.7)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(12.9=75.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
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]