RnoINT0036332 @ rn6
Intron Retention
Gene
ENSRNOG00000020778 | Chrnb2
Description
cholinergic receptor nicotinic beta 2 subunit [Source:RGD Symbol;Acc:2350]
Coordinates
chr2:189088570-189093871:-
Coord C1 exon
chr2:189092902-189093871
Coord A exon
chr2:189089247-189092901
Coord C2 exon
chr2:189088570-189089246
Length
3655 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
3' ss Seq
ACTCTCTTCCCTCCATCCAGGTG
3' ss Score
11.61
Exon sequences
Seq C1 exon
TGCTGACGGCATGTACGAAGTCTCCTTCTATTCCAATGCTGTGGTCTCCTATGATGGCAGCATCTTTTGGCTACCACCTGCCATCTACAAGAGTGCATGCAAGATTGAGGTGAAGCACTTCCCATTTGACCAGCAGAATTGCACCATGAAGTTTCGCTCATGGACCTACGACCGTACTGAGATTGACCTGGTGCTCAAAAGTGATGTGGCCAGTCTGGATGACTTCACACCCAGCGGGGAGTGGGACATCATCGCACTGCCAGGCCGACGCAACGAGAACCCAGACGACTCCACCTATGTGGACATCACCTATGACTTCATCATTCGTCGCAAACCACTCTTCTACACTATCAACCTCATCATCCCCTGCGTACTCATCACCTCGCTGGCCATCCTGGTCTTCTACCTGCCCTCAGACTGTGGTGAAAAGATGACACTTTGTATTTCTGTGCTGCTAGCACTCACGGTGTTCCTGCTGCTCATCTCCAAGATTGTGCCTCCCACCTCCCTCGATGTACCGCTGGTGGGCAAGTACCTCATGTTCACCATGGTGCTAGTCACCTTCTCCATCGTCACCAGCGTGTGTGTGCTCAATGTGCACCACCGCTCGCCTACCACGCACACCATGGCCCCCTGGGTCAAGGTGGTCTTCCTGGAGAAGCTGCCCACCCTGCTCTTCCTGCAGCAGCCACGCCACCGCTGTGCACGTCAGCGTCTGCGCTTGAGGAGGCGCCAGCGAGAGCGTGAGGGCGCAGGCGCGCTTTTCTTCCGTGAAGGTCCTGCGGCTGACCCATGTACCTGCTTTGTCAACCCTGCATCAGTGCAGGGCTTGGCTGGGGCTTTCCGAGCTGAGCCCACTGCAGCCGGCCCGGGGCGCTCTGTGGGGCCATGCAGCTGTGGCCTCCGGGAAGCAGTGGATGGCGTACGCTTCATTGCGGACCACATGCGAAGTGAGGATGATGACCAGAGT
Seq A exon
GTGAGTACCAAGTGCAAAATAGGCATGTCGGGAGCAGGGACCCCTGCGTGCGGGCAGTAGGTGTCACTTAGGGTCACAAAGCAAGGGTACAGGGGAGAGGCAACATGGTTGAGGTGGACTCGGTAGGGTAGGCTTCCAGATTGGCTTGCCGGTGTCTGTACCAGATGACCTTGTAGCTCCCAGAGGACTAGTACTCAGGGTGAGATATGTCAGTTAAGGCATAGTTAGTGTGAAAGAGGTGACTAGGAACCTTAGGGCAGGGAGTTCTTTTGGGTCTGAGGGTGTCACCGAGTTAGCTCACATGAACACTTCAAAGTTGTTAATGTGCTGCTGTTCTTAGTGCAAATGGAGATGAGTCCTTGTGGACCACAGAGTGGACAGAATTGAGGACGGGGATGATGACAGATAGGAAAAGGAAAAGTTTAGAGGTTCCATGGGACTGGTCCCAGCAGAGAAAGTAGAATTTAAAATCAATATCCCGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGGAAGCGCAAAGCCCTGGGTTCGATCCCCAGCTCCGAAAAAAAAAATCAATATCCCATTTCTACTGTCCTGGGCCTTGAAAAGAGTCTAATGAAATATTTATAGAAACGGGGTGGATAAAAGCCAGGGCTAGACACTCTCGCCCTCTTTCTGCACACCCAGCTCTGGCCTTCTCTGCAGTCTTCCCAGAAGGAGATTCCTCGAGACTAAGCCAGGAGTTGGGGGAAGGTGCGATGAGGATGAGTTAGCATCCTGCCCCCCCCCCCCCAGTTTGGGTACCATCTGGTCTTCTCTGAGATCAGTGTTCAGGTACCTGACTGGTTCTAAGCCAAGGCTCAGTTGTTGCCATAGTGACCAGCAAGGTTTCCTCTGGGACTCTGCCATTCCGGCTGGGGAAGGATAAAGGGCAAGCACTGTGGTTTGTGTTGGGAGCTGAGTTCAGACAGCTTCTCCCCTGGGCAGCAGACAAGCATGGGAGAGGGAACATCGTATAGTTCAGAGGAAGGGAGAGAGGCTGAGACTGGAGGTGAGGCAGCTGAGGTGCAGGGTGCCTCCGTCTCTGCTGCTGGATCACTGGCCTCCGTCTCTGCTGCAGTCCACCATGGAGCCTACATTTCAAGTCAGGTGCTGAGGTGCAGTGACCCACTTGGATGCCTCAGAGGCCTCTAGAACTCAACACATCCAAAACCTAGCGTTTGATCTACACCCCCAACCCGGCCCTATTTTGCCCCTAGCTTCTCTGTCTTGCTGTAAATGGCATCACCATGGGATAAGCAGTTCAGACTGAAGCCTGGATGATCCTTTTACACTCTCTCTCTCTCTCTCTCTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCAGTTCTCACCACTGAGGTTATCAGAATTCCTGTCCTGGGAGTACCACCTCCAACATGATTCCCTGCTTGTCTTTTTTCTGTCACCTTCACACTAACACCCTTGTCCTTGGGCTCTGTCAACTTTTGTGTGGACCGGGAGAATTTCCAAACTGCCTCCCTGTTCAGCTTCCTATGCCACTGTTGAATAGCCCACAGCCCCAGGCTGGTGACACAGTCCCTTGCTTGGGTCACTAGCTTATCACTCAGTTGTCTCTAGCAAGCCAAGCTCTTTCCTGCCCTGGAGGCTTTGCATCTGGGTCCCTGCACTGGGAACAACCTTTGTTTAGTTACTTTCTCATTGCTGTGACAAAAATCCTCCAGGAAAGCAGATGCAGGGAAGCAGACTTTGTTGGGCCTCACAGTTTGAGGTTACAGCCCAAGGCATTAGTGGGAACACTGGTTCTATTTCAGTCTGGAAACAGGGAGAGGGGAATACCGAGTTCAACTAATACTTTAGTTTCCCCTTCTGTCTGGGACCCTAGCCCTTACTCCAATCTAGAAAAAGCCCTATGGACTTGCTCAGGCTTGTTCCCACAATGGTGCTAAATCTCATCAAACTTATGATATCACACTTTCTTCCACCTCACCCCCTCAAGTCAAAACCCAAACCTATTACTGTTATTATTTGGCTCCATTCTTTAAAAGTAAACACGCAACCTCGAATCCCAAACACTCGGATGTCAGGCATGGTGCCCTGCATGCCTCAGCTTCAGGCTGGGAGTGGGGCTTAGTGTAGATGCACAGTGATCGTGTGAAAGGCCTCGAGTTCCAAATGCTATTGACAGCCAACCAAAATAACAGTGAAGTGCCTGGCTTCGAAGACCAGATTCTGGAAACGGCATCAATACTTTTACCACCATACGGTCCGCATTCAAGGTTTTCCTGCTGTCCCAGTAGCATCCTTCCTCGAAGCCCGACATCACACCTAGGAGCCCAAGCTGCACTGAGTTGCCGAGCCTCATTGGTTCGCCCTCAGCTTTCTTTGCCTTTCATGGGACAAACAGTTTAAAGAGGCCAGGCCGGGCTGCTGTTCTGCTGGCTTTGCCAAGTCTTCAGTGTGGACCTGAAACAGGGCTTCCTCCCTCCCTAGCAGAGTTTGCTGTACGCGTCATCTCCTGGAAGAGGCTTTCCCAGGGTGCTTTGCTACTCTTCCTTCTGTGTCTCCATCCTAGTCTTCCATCCCCTCTCAGGGTATAATCATCGGTTTATTGTCTCTGTCTCCTTGAAGAGACTGAAAACCATAGGATTCGTCCATTGGTTGTGTCCCCGAGCCTTGCAGGATGGCAGGTCTGTGGCAGGCCCAACAATGACTTCAGTGAGTGAGCGACAGGCTGGCTGGCAGCTACATGAACTGCACAGTTGCCTGCTTCCCATCCCGTGAGCTGGCTGGACCCCAGAGAAACACGTACGGAAAAAACAGGACTCAGTCTGGAAGAGAAGCTGGCTTTCCTATGACCCTGCAGATGGTTCTCAGACCCTGGGATTATAACCTTTTGGACTGATGTTTTTTTTTTTTTTTTTTCCAGAGCTGGGACCAAACCCAGGGCCTTGCGCTTGCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCTGGACTGATGTTTTAACACTTGGGCTCCACTTTTACCTTCCAGGCTCTGTGTAGGAGTGAGGATGTTGGATGGGGTATTCCAAGTTATCATAAAAACAGAGCCCCAGAGACAGCAGCTCTTAGTTACTGAGCACTGTCCTGATGCTAGCAGGGTTCCTCTCATGTAGGAGTTTGAAGTTTGGAGGAAGGCCAGACATACAGATTAAAACAATAGGGTATACCGAGATGGCTAGTGCTAGGGAACAAAAGGAGCAGGGAAGCCACTAATTGTTTCACTAATAGACAATTAGGAAATTAGGGCTTTGAAATATGTGTAGGAGTTTACCAGGTTTTTTTTTTTTTTTTTGAGGTGAGAGAACTAAGAAGACATGCTGGAGTTCTTACTAAGTCTGAATTTGGGCGTGGGAGGCAATATGAAATAGACTCGTATTTGATAGGTTCGGGTGGGCCCTGGAGCAGCAGGAGCATTAGAGTCTTTAGAGTAGGCAGGATCGGAGCTGTGAAAAGTTGCTCTGGGTTTGCTGAGGGAGAGGAGTGGGCGTGTGCATATGTGGGAAGGACTTTCCTACCCCTTCCCACATCGTGAGACTGAGATCTGGGTCACTCTCTTCCCTCCATCCAG
Seq C2 exon
GTGAGGGAGGACTGGAAATACGTTGCCATGGTGATCGACCGCCTGTTCCTGTGGATCTTTGTCTTTGTCTGTGTCTTTGGGACCGTCGGCATGTTCCTGCAGCCTCTCTTCCAGAACTACACTGCCACTACCTTCCTCCACCCTGACCACTCAGCTCCCAGCTCCAAGTGAGGTCTCATTCATTTGCAGCTCCTCACCCCGTGACCCCTGCGGTTCAGTACTGGGTGCAAGATGGATCTCTCCCCACTCCACTGAAGCCTGCTTCACACCTCCGTTCACACATAGTCCTCCAGCCTGGAGGCTGGACCCGCTGCCTTGTGGTCGAGCCTTCTCCTTTCCCTCTGAGCTCGTTCAGGCAGGAGTGCCAATGGTGGGGGCCACGGCTGGTAAGTAGAGGCCAGAGATCACAGAGCCACCTACCCCGATGAGGGTGCTGGAGAAGGCGCCAAGAAAGAGACAGAGTTATCTGTGACCTCCAAGTCATCGGAGAGGAGGAGGTAGGATAAGGGGCTCAGACTCTGGCAGAGTGCGGCTAGTACTTGGCGCCCACCCACTTAAGTGAGCGACACTGGTCTGGGAGGACTCGAAGTGTTGGGGAGCTCTCTTGGGAGCTCGGTCTCCCACCCTGTACCTCAGAGGGCTCCAGACCCGGGCTTCAGGTTCCCTTCTGCCAGTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020778:ENSRNOT00000028200:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.018
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PD(54.4=34.6),PF0293211=Neur_chan_memb=PU(86.1=63.0)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(13.1=54.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
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]