DreINT0085112 @ danRer10
Intron Retention
Gene
ENSDARG00000079484 | kcnt1
Description
potassium channel, subfamily T, member 1 [Source:ZFIN;Acc:ZDB-GENE-091231-1]
Coordinates
chr21:4719143-4720615:-
Coord C1 exon
chr21:4720532-4720615
Coord A exon
chr21:4719266-4720531
Coord C2 exon
chr21:4719143-4719265
Length
1266 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
ATATATTAATGTGTGTGTAGATG
3' ss Score
4.73
Exon sequences
Seq C1 exon
TGTTTTGTGAAGGACTACATGATCCCCATAGCCAGATTACTGCTGGGATTGGACACCACACCTGGATCTGGATACCTGTGTGCT
Seq A exon
GTGAGTGTTTTTTATTTTCTGCAGACCCGATGACTACTTCCTTGAGGCAATTGTGTTTCCCAATGGTGCACTATATAGGTTCAACCATTGACAAGTACAGTTATTCTAAAACGTCTTTTTGACTAGGGCTGCAGCATTGAGAAAAAAAAACATTCAGATTATTATTGCAGCTTTATTTTTCACTGCAGTGGGATATAAGTAACACTTTACAATTCAATTCAACTCAGTTCAACTGTTTATTGTCATGTGCACAGTAAGGAAACACGTTTCCCTGTACAATGAGATTCTTACTTTGCACACAGTGCAAACACAGTGAAGTCATACACACAACATACACAACATACACAACATACACATAAATACACATATATACACAGAAGTGACTGAAGTATGATTATAAAGTATATAAATATAAATATATATATACTTATATAAATATGTATATAAGTATATAAATATCTATGAAAGTAAACAATATATAAAACAGATTTAAGTAATGAAACAGATGTAAACAATGTACAGTGGTTCTTAAATTGTGCTTATTATGCAAAAAGTGCCTAGTGCAATTGGCTTTTGTGCAAAAAATAGTGCAAACTGGGATGGAGAATGTAGTGTTGTACTGAGCAGAAAAAGAAACTGTTATGTGCATTGGTTATCTGTTTAGAAGTTTGATAGCTGATGGGAAGAAAGAGTTCTTGAGTCTGGCAGTCCTGCATCTCACACTCCTGTACCTCCGCCCTGAGGGTAGGAGTGTGAATGATCTGTGTTGTGGGTGAGTGGGGTCTTTCAGGATGGAGGCAGTTCTCTTGTGGACTCTGTGATGGTAGATAGTCTGCAGAGAAGGCAGTGGGGACCTGATGATCTTCCAGTCATCACCACTCTCTGCAGACGTTTGCGGTCCTTTACAGTAGTGTTGCCATACCATACAGTAATGCAGTTGGTCAGAATGCTGTTGCTTATTTACAATAAGGTTCCCTTAGATCAGGGTGTCCAAATTCGGTCCTGGAGGGCCGGTGTCCTGCTGAGTTTACCTGCAACTTGCTTCAACACACCTGCCAGGAAGTTTCTTGTATATCTAGTAAGAGCTTGATTAGCTGGTTCAGGTGTGTTTGATTAGGGTTGAAGCTAAACTTTCCAGGACACCGGCCCTCCAGGACCGAGTTTGGACACGCCTGCCTTAGATAATGTATTATGAACAAATAATTAGCAATTACATTTATATTGTATTTATTCACCTTTATTAAGAATATATTAATGTGTGTGTAG
Seq C2 exon
ATGCACATATGTGAGGCTGATCTCTGGATCCGCACATACGGGAGACTCTTCCAGAAGTTCTGCTCATCCAGTTCAGAGATTCCCATCGGAATCTACCGCACAGAATCACACGCACCACCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079484:ENSDART00000150936:21
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTTGTGAAGGACTACATGATCCC
R:
CTCAGGTGGTGCGTGTGATTC
Band lengths:
206-1472
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]