GgaINT1009468 @ galGal4
Intron Retention
Gene
ENSGALG00000002707 | CHRNB2
Description
neuronal acetylcholine receptor subunit beta-2 precursor [Source:RefSeq peptide;Acc:NP_990144]
Coordinates
chr25:1236165-1238292:+
Coord C1 exon
chr25:1236165-1237125
Coord A exon
chr25:1237126-1238101
Coord C2 exon
chr25:1238102-1238292
Length
976 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
3' ss Seq
CCATCCCCGGCCCCACGCAGGTG
3' ss Score
5.91
Exon sequences
Seq C1 exon
CGCCGACGGGATGTACGAGGTCTCCTTCTACTCCAACGCCGTCATCTCCTACGACGGCAGCATCTTCTGGCTGCCCCCCGCCATCTACAAGAGCGCGTGCAAGATCGAGGTGAAGCATTTCCCCTTCGACCAACAGAACTGCACCATGAAGTTCCGTTCCTGGACCTACGACCGCACCGAGATCGACCTGGTGCTGAAGAGCGAGGTGGCCAGCCTGGATGACTTCACGCCCAGCGGCGAGTGGGACATCGTGGCGCTGCCGGGACGGCGCAACGAGAACCCGGACGACTCCACCTACGTGGACATCACCTACGACTTCATCATCCGGCGCAAGCCGCTCTTCTACACCATCAACCTTATCATCCCCTGCATCCTCATCACCTCCCTGGCCATCCTCGTCTTCTACCTCCCCTCCGACTGCGGAGAGAAGATGACGCTCTGCATCTCCGTCCTGCTCGCCCTCACCGTCTTCCTGCTGCTCATCTCCAAGATCGTGCCGCCCACCTCGCTGGACGTGCCGCTGGTGGGCAAGTACCTCATGTTCACCATGGTGCTGGTGACCTTCTCCATCGTCACCAGCGTCTGCGTGCTCAACGTGCACCACCGCTCGCCCACCACTCACACCATGCCGCCCTGGGTGCGCACCCTTTTCCTCCGCAAGCTCCCGGCGCTGCTCTTCATGAAGCAGCCGCAGCAGAACTGCGCGAGGCAACGCCTGCGCCAGCGTCGCCAAACCCAGGAGCGTGCCGCAGCTGCCACGCTTTTCCTCCGGGCCGGTGCTCGTGCCTGCGCCTGCTATGCCAACCCTGGGGCTGCCAAAGCCGAGGGGCTCAATGGTTACCGGGAGCGGCAGGGGCAGGGGCCGGATCCCCCGGCACCGTGCGGCTGCGGGCTGGAGGAGGCGGTGGAGGGAGTGCGCTTCATTGCAGACCACATGCGCAGCGAGGACGACGACCAGAGT
Seq A exon
GTGAGTCGGGGTGGGGTGAGTGGGGGGGGATACGTGGGCAGGGATGAGGGTTGGGGTGTGGGGTGCAGGCGGAGGCGTAGGGTGTCTGTATGGGGTCCAAGCAGAGCTGGAGGGTGCAGGCAGGGCTGTGGGGTGCAGGTGGGGATGTGGGGCACGGGGTGCAGGCAGTGTTATAGGGTGCAGACAGCGTGAGGGGGAGCAGACATCGTTATGGGGTGCAGGGGGGGTAGGGGGCAGGCAGGGCTGTGGGGCATGAGGTGCAGGCAGCGTTATGGGGTGTAGGCAGGGCTGTAGGGAGTGGGGTGCAGGCAGCATTATGGGGTGCAGGGGGTGCTGTGGGGTGCAGGCAGGGCTGTGGGGCATGGGTTGCAGGTAGTGTTATGGGGTGCAGAGGGGGCTATGGGACATGGGATGCAGGCAGCGTTATGGGGTGCAGGGGGGCTATGGGGCATGGGGTGCAGGTAGTGTTATGGGGTGCAGGTGGGGCTGTGGGCTGCACACCATTACGTAGAGCTACGGGATGTGCAAAGGGCTGTGATGCGCATGGAGGGCTGCGAGAGGTGCGCAGGGCTATAGGGTGCACATACAGGGCTGTGGGGTGCATGCAACGCTCTGGGAAGGGATGTTCACACCCACACCATGGGATCCCTGCCTGGCCACGTCCCCAGGAGCCCCCCCAGCCCCATATCTGACCCCTTCCCCCATCAGCACACGGCTGCTCCCAGGAGGGCTGACCCACGCAGCCGCTGCCGCAGCACCGTGAGGCTGCAGATTTGAGGCAGCCTGGGATGGGGACACAACCCCAGCGTGGCTGAGCAGCGAGATGAGTTTCCTGCACTCAGCAGAGGAGCTGCCAGGGCAGGGATGAGCCCAGGGAGCCGCAGTGCTGAGGGTGCAGATCTGGGGCTCCGCAGGATAAGAGGGCCAAGAGCTGAACCCCCCTGAGCTGACCAAACCCATCCCCGGCCCCACGCAG
Seq C2 exon
GTGAGCGAGGACTGGAAGTACGTGGCCATGGTCATCGACCGCCTCTTCTTATGGATCTTCGTCTTCGTCTGCATCTTCGGCACCGTCGGGATGTTCCTGCAGCCCCTCTTCCAGAACTACGCCACCAATTCCCTGCTGCAGCTCGGCCAGGGCACCCCCACCTCCAAATAGTGCCGGGGGGGGGGGGGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002707:ENSGALT00000004270:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.069 A=NA C2=0.036
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PD(68.3=34.9),PF103294=DUF2417=WD(100=48.3),PF0293211=Neur_chan_memb=PU(85.9=62.6)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(13.2=54.4)
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:
CTCTTCATGAAGCAGCCGCAG
R:
TCCATAAGAAGAGGCGGTCGA
Band lengths:
343-1319
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]