BtaINT0038362 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014056 | CHRNA6
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1MQ06]
Coordinates
chr27:37195913-37199317:-
Coord C1 exon
chr27:37198339-37199317
Coord A exon
chr27:37196045-37198338
Coord C2 exon
chr27:37195913-37196044
Length
2294 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
CTTGACATTTTGTCTTTCAGGTA
3' ss Score
11.31
Exon sequences
Seq C1 exon
TGCGGTCGGCGACTTCCAAGTCAAAGGCAAGACAAAAGCTCTTCTTAAATACGATGGCATGATAACCTGGACTCCACCAGCGATTTTTAAGAGTTCCTGTCCAATGGACATCACTTTTTTCCCTTTTGACCATCAAAATTGTTCCCTGAAATTTGGTTCCTGGACTTACGACAAAGCTGAAATTGACCTTCTAATCATTGGCTCTAAAGTGGACATGAATGAGTTTTGGGAGAACAGCGAGTGGGAAATTGTCGACGCTTCTGGCTACAAGCATGACATAAAGTACAACTGTTGTGAAGAGATATACACAGACATCACCTACTCTTTCTACATCAGGAGGCTCCCAATGTTTTACACCATTAATCTGATCATCCCCTGCCTCTTTATCTCGTTCCTCACTGTCTTGGTCTTCTACCTCCCTTCTGACTGTGGTGAAAAGGTGACTCTTTGCATTTCAGTGCTGCTTTCTCTGACTGTGTTTTTGCTGGTGATCACAGAAACCATCCCGTCCACGTCTCTCGTGATCCCCCTGGTGGGCGAATACCTGCTCTTCACCATGATCTTCGTCACCCTGTCCATCGTGGTCACGGTGTTTGTGCTGAACATCCACTATCGTACCCCGACCACTCACAGCATGCCCACGTGGGTGAAGGCGGTCTTCCTCCGGCTGTTACCCCAGATGCTGATGATGAAGAGGCCTCTGGACAAGATGAAGGAGACAGGAGCTCATAGAAACCCCAAAGGAGTCTCCAGTAGGCCTGCCAAAGTCAAGTTTGAGCATCACAAAGAGCCCAGACTTCTTAAAGAATGCTGCCACTGTCATAGATCTGGTGAGCCTGCCACCAGCAAGAGACGATTAAGTCATCAGCCTTTACAGTGGATGGCTGAAAATTCGGAGCTCTCGCCTGAAGTCGAAGATGTAATCGATAGTGTTCATTTCATAGCGGAAAACATGAAGACCCAAAATGAAACAAAGGAG
Seq A exon
GTAAATGCATGAGTCTTCTAGCCTGTCCACCCACAGCAGTCCTAGGGGCCCTGCATAGAACCCTAGTCAGAACTCCAGCGTGAGTTCTGTTTGCAAGACAGTCAGAGAGTGGGTGCCCTGAGATCCAGCTCTGTGATGCTGCAGTTATGGGTGAACTGCCCTGGGTGAAGGGATGGAGTAAGGGGTAGCCTCAGAGCAAATCTTTGCCTCCAGAAATGTCAACTCAAGTGAAATCTGGTTAAAACAAACACTCAGGGCAATCTTGGTTTAGTTAGACTGAGAGCCCCTGCTTAAGGAAGGCTGGGAGAGGGAAGAGCCAGTCGAGGGATAGGACGGAATGCTGCAGCTCCGATCGCACTCAGTAGACCTGACAGGGATGCAGGTGCTGGTGGGATGAGCTTCGGGGATATTTTTAGCATCAACTCAGTCGGCTCCTGCTGCCCAGGGCCTAACTATAGCAGGATAGACCTCCCCATCCTCCAGAGAGAGAGCTCAAGAAATGTATGCCAACTTTCCATCCCATCACGATGACTAGCTAGGCGCCTCTGAAAACTCATGCCAGGGGTCTGGGTCTGACCTGATGGCAGCTGCCAGCATCCATATCTCCTGATGAAAGGACATCGCAGACCTGAAGTCTGCCCATTGGTGCCAGGGAGGACAGTAAGTGCGTGTCACACAGGTGCAGGGGGGGTTGGTATCAGCAGCAGGTGAGCCTGGGACTCCCTTCTGTGAGGACACCTTCATCAAACCTAGGGGACAGTTGCTCTGACTTCAGGACCACCAGGTAGGGCCCTTGGAGCTTGGGAACAGGAAGGGCAGGAGAGGTATAAGGAACTCTCCACTCTAGTGTGATGCCAGGGTCTAGAGGGCTGCTGGCTCCTGATGGGGGACCATCATCCTGCAGAGCTTATGCCCCACCCTCTGCTGCCTCAAACCCAGTTCCTGGACTTGCCGCAGGGTCAGGGATTCCATGGTGCTCATGAAAAGAGTGGGTGAAAAATGTCCCCACTCCATCAGTTAACAATGGATGCTGTAGCCGTCAAGCCATCAGTCACTGCCGTCACCCCCAGCTGTGCACCCTGAGGGGCCTCAGGATGGAGAAAGTGGGATGCTGGCCCTAGACAGATAAGGTGCACATCCAAGGAATGATTTCCATAAGCCCAGACTCTTGCCTCTTCCCACCTATAGAAAAGCAGTAAACTCATTAACTTGAGATGTCTGGTTTTCTTTGATTAACAGTAATCTTTTTAAAAACTTAAAAAACAATTGAAGGATAGTTGATTTACAATGTTGTGCTAGTTTCTGCTGTACAGCAAAGTGACTCAGTTATACATATATATATACATTCTTTTTAAGTATTCTTGTTTATCCCAGGAGATTGTGTAGGAATAAGCCAGGATATATAGGAGGTTTTGCAAGAAAAACTAGCCAGTTGAAACATCAAAGGATGACTGTGGCACTCAGATGCAACAGAATGTTCTGCAACATCATCTTCTGATATTCTGACTACCTGGTCTTTGTTGCAAAATCTTATTATCCTGGCTCCTCCTTTACCTCTTCAGGGCAGTCCCTCAGAGTAATCTCAGAGGCTGCCTCCCAGGCTTGAAGTCCTCAGAAAATCCACGAATAGAACATAAGTCTCGAGGGGGAGGGAGGGAGGCTCAAGAGGGAGAGCCTTACATTTATATAATTATGACTGATTTGAGTTGCTGGACAACAGAAACCAACACAATATTGTAAAGCAATTTTGCTCCAATTAAAAATAAATTAATCCTCAACTTTCAGGTTGTGCTTTTTTCTCAGTTAATGCAAGAATGGAGCAATCTGAGCAGCTCTTTCAGGGCTGCTACTTGCAGCCAGGCTGGAGAAGGGAATGACAACCCACTCCAGTATTCTTGCCTGGAAAATCCCACAGACAGAGGAGGCTGGCGGGCTACAGTCCACGGGGTCGCAAAGAGTCAGACGCGACTGAGCGACCTACACACACACACACACACACACACACACACACACACACTTGCAGTCAGGAGAAGCCCTGTGTGCCCTGCGGGAGCCTGCTGACTCTGCAGCCCTCTGCCCCAGGACTGATGGCGCACACAAACCCTCCGTCTGCAGACAAACGGTTGTTCTCTGTGCACACTACGGAGGAGACACGGGTTAACCAGAATCATAGGGATATTTGCTTTAAAAATTGTCAGCGAATCTTCTATGCAAAGGAGGCAGCTTATATTTGAAACAGAGCTTATCTCCCATGGTTTTCAGTTTTTACAGATGCTTGACATTTTGTCTTTCAG
Seq C2 exon
GTAGAGGACGACTGGAAATACGTGGCCATGGTGGTGGACAGGGTGTTCCTGTGGGTGTTTATAATCGTCTGTGTGTTTGGAACTGCAGGGCTGTTTCTCCAGCCGCTCCTGGGGAACACAGGGCATTCGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014056:ENSBTAT00000018679:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.064 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PD(55.6=35.2),PF0293211=Neur_chan_memb=PU(86.1=62.4)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(13.1=70.5)
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]