DreINT0085101 @ danRer10
Intron Retention
Gene
ENSDARG00000079484 | kcnt1
Description
potassium channel, subfamily T, member 1 [Source:ZFIN;Acc:ZDB-GENE-091231-1]
Coordinates
chr21:4737526-4738890:-
Coord C1 exon
chr21:4738782-4738890
Coord A exon
chr21:4737676-4738781
Coord C2 exon
chr21:4737526-4737675
Length
1106 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
ACACTTCTTTACTCTTTTAGAGA
3' ss Score
8.56
Exon sequences
Seq C1 exon
ATCACGTTGTGTGTGAGGAAGAGTTTAAATACGCCATGTTGGCTCTGAACTGTCTGTGTCCGGCCACTTCTACTCTGATCACTTTACTGGTTCACACATCTCGCGGACA
Seq A exon
GTGAGTTTACAACACTCCTAGATTTTTTAATGGTGTTACTTCTGAGCTACTAGCGCTACCACATGGAACTGAAAAATGCTTACAACTTTTAAATTGGTTGTCTAAATACACCATGATACAGTACTGTTTTTTTTTTTGTACTTATATAATATTTATATTTATATTAAGTGGCCTTAACTAATATGTACTTAAACAGGAATTAATAGATTGTTATAATGTACTTATTGTGTAAATACATGTATTTACTGTGTACTTATGCTTGATTAAATACCTGTATGCAACTACATCTGTAATTAACTTTTGTATTTACATTTGTAAATACACTGTTGACTATCCCTTACACCTTAACCCACCCTTAAACCTATCCACACCAACAAACCTGTCCATAACACAACCTCTTTCCCAACTCAAAAGCACCACAAGTGTTCTCAAATACATTATAAACACAGTAAGTACATTGTATTTATTTTTTTTTATGTAAGTACATAGTAGTGTAGGACACTTAATATAAAGTGGGACCATATTTTTTATATAGCAAAGAAACATTATATAGATTAAAAGTAAATAAATTTATAAAGTTTTTATACTAACTATATTATATTATTTATAATGTATTTTACAAGATATTTATATTCAAATATAAACTATTTATTCATCACAAAATCCTAAAAAAAACTAAGATAATAATAATTGTTTCTTAAGCATCAAATCAGCATATAAAAAATATTTCTTTTCTTTCTTTAAATAAAGAAAAATATTTCCTTATTCCGTTATGTAATGGTGAAGACTCAATTATGCTGAAAATTTATTATTTCATTACTGGAATAAATTAAATGTTAAATTATATTCACATATAAAGACATTATTTTTTAATTGTAAAAATATTTCACATTTTACTGCATCATTGATCAAACCAATTCAAACTGGGTAAGCACAAACAAAAATCAGTGCTTTTTCATGCACATCACAAAGCATTTAATCATATCCACTTTCCTGCAAATAATAATTGTTAATAAAAGTTTAATATAATTAAAATTATATAGTTCTATAACTATATAATTATAAAAATAAGTATATAGTTAAATAACACTTCTTTACTCTTTTAG
Seq C2 exon
AGAGGGCCAGCAGTCTCCGGAGCAGTGGCAGAGGATGTATGGTCGATGTTCGGGTAATGAGGTCTATCATATCCGCCTGGGTGACAGTATGTTCTTCAGGGAGTACAACAGCAAAAGCTTTACCTATGCTGCCTTTCACGCTCACAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079484:ENSDART00000150936:11
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=0.089
Domain overlap (PFAM):
C1:
PF0349313=BK_channel_a=FE(32.5=100)
A:
NA
C2:
PF0349313=BK_channel_a=FE(45.6=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:
CACGTTGTGTGTGAGGAAGAGT
R:
TTTTGTGAGCGTGAAAGGCAG
Band lengths:
256-1362
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]