DreINT0084916 @ danRer10
Intron Retention
Gene
ENSDARG00000062217 | kcnj3b
Description
potassium inwardly-rectifying channel, subfamily J, member 3b [Source:ZFIN;Acc:ZDB-GENE-120215-38]
Coordinates
chr6:13071990-13075278:-
Coord C1 exon
chr6:13073663-13075278
Coord A exon
chr6:13072207-13073662
Coord C2 exon
chr6:13071990-13072206
Length
1456 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
TTTTCTACATTTCCTCTTAGTCC
3' ss Score
6.86
Exon sequences
Seq C1 exon
GTCGATGTACAAAAGTGCTCAAGCAGCTGCTGTTGCTATGGTTACCTCTTTAAGCAAATACAGAAAGCGAGTATTTAACGACTAACTTTTGCGAATAATAAAAGATCTGAAAACTCAATTAACATTCCCTAAAATTGCATTAAAATTTTTGCAAATTCACTTGGGTAAGAGAGAGAAGAGTGGCAAAGACTTAACTGACCCCTCAAACCCTCGTAATGTGCATATAGTGCTGTGATTTTGCAGAGATTACTGTACGTTATATGTGCAGCACCGTTTAGAGAAGCATAATAACAGCGCAGCAAAAAAAACAAGAGATGCACCCAACACAGGAACACGTGTTCATCCCTCCCCCAGCTTCATCTCCACCACCCTCTTAGAGAAGTTTCTCTTATTTGTCGGGGCTGGAGATGGAGTTGGAGAGCTGGAGGCGCGCAGTGCGCAGGAACCGAGAACAGTGAGAAGACGAAGAGAATCAGATAACAGCCTATGCCAGCTGTGAGGAACAGCAGAGGCGGCGAGTTAAAACTTGGACCGGATCCTTAGGGCGTCTACCAACTACCGTCTTATTAAATTGGTGCGATACACCTGGGGAAACAGGAGGAGTGGATGAAGGTGGAGGAGGAGGAGGGTGCCAACGCACAAGTGCTAGACTGCGCCAAGCCAATCTGAGATTACAAATTACTCGCATCCATATTTCTCCACATAGGGCTGAGAGAGTCTGTTTTAGTTATGCGGATCTGGAGAAGACGAGGAGATCTGCGTCGCTCCATCCCAAGACAAACGCGCTGTTATTGACAAACTCCTGCAGGGTAAGCCTTATAAATAACTTTTTGTCTGCCCAGAAATGCGGGAGACTGGTGCGGCTGAAGTGTGAGGAAAACCGAAAACATTTCTGTCAGGAACTAAGCGTACATTCGGGACAACTTTAAGCGAGAAGGATGTCCGCGTTGAGGAAAAAATTTGGGGATGATTATCAGGTGGTGACCACCTCGTCCAGCGGCGGCGGGTTCAACCAAGCGGCCCCCGAGAAGAAAAGGAAACGTCAGCGCTTTGTGGACAAGAACGGCCGCTGTAACGTCCAGCACGGGAACCTGGGAGGAGAGACGAGCCGGTACCTGTCCGACCTGTTCACCACGCTCGTGGACCTCAAATGGCGCTGGAACCTTTTCATCTTCATCCTCACATACACGGTGGCGTGGCTCTTCATGGCTTCTATGTGGTGGGTCATTGCTTTTATACGCGGAGACATGAACCAGGCCCACGACGACAAGTACACGCCGTGCGTGGCCAATGTGTACAACTTTCCCTCCGCTTTTCTGTTCTTCATCGAGACCGAGGCCACTATCGGATACGGTTACCGCTACATTACAGACAAGTGTCCGGAAGGCATCATTCTCTTCCTCTTCCAGTCCATCCTAGGCTCTATAGTGGACGCTTTTCTAATCGGCTGCATGTTCATCAAGATGTCCCAGCCGAAGAAACGCGCGGAGACGCTCATGTTCAGCGAGCACGCGGCGATTTCCATGCGTGACGGCAAACTGACCCTGATGTTCCGCGTGGGGAACCTGCGCAACAGCCATATGGTCTCCGCGCAAATACGCTGCAAACTGCTCAAA
Seq A exon
GTGAGTATCCAACCAGTTAAATAAAAGTCACACAGAACATATTATTTATTAGAATGTTAAATATCACAGTTTAATTGATGTTTAATCATAACATGTGATTATGATGCATTTAATTGATTATTTAAAAGGTTCAATCTAAGGTTCATCGTTTAGCCTCAACATAGGCTTTACCTCAAGCCCTGATAAATGAGAAGGACCTGTAATTTGATTTGCCCACCTACCGTGGACAAAGTATCGATCCACTCCATGTGACTTTCCTTTTTCAAACACTGTAAATACATTGGACCTGAGAGTCACTACCACAGACATTGAGGAGGACAAGCACACCCCCACCAGTGATTAGAAATGGGCAAATGTTCCCATATTTCCACCTGTACTGTTCTCCTTTAGCTTTTTTTTGGTCAGGATTACATAGGCTAGTCAACCTCAGCAGTCTAAAAAATATTTTTGATGATAAAACAATTAATATTTGGTAATAATCTAATTAGGCAGAGTTTACAAAATAAAGGTTCCAAAAGAGGAGTTTTAGAGTGATGTCATAAAAGATATATTATTGGTTAAGATATTTTAATAACACTTCTATAAAAGTTATTCAAATAACAGTTCTAAAAAGATCATTTTAAGTATTCTAAACAAAAGAATAAATAATAGTTTTGTGCAAATGAAATATATGGATGGTTAAAGGTTCCTCATAGTACCACCAATTGCAATAAATAATCATCTTTTTAAGTGCACATAAGCAGAGTGTATGGCTTCCAGTGCAAAGAATTAGTTTTAATACAAGCTAAAAGAGACCAAGGTAAAATAAAAACAGTGAATATGTTAAACAACTGGCAGTAATGTAATCTACTTGTGTTTCCCCCCAGCCAAATTTTACTGTTTTTAGGCACAAAAAAAAAATGCTACGATCCATGCCATGTGAATGTAAGAAGACTTGAGACATTTGATTTTTTCGATATCGGGCATACAAATAAGAGGGAATGTATGTTTGTTTTAAAACGACAGAAGTAAAAATGATCCCTTCAGTATAATTAAACTATTTCCTTCACCACTACTTTTTTTTAATACTTGATAAAGGCACATACATGTATAAAGGCATATTTCACCCATAAAATTCTGTCGTTTATTCGTCCTTCCAAACCTGTTTGAGTTTCTTTCTTCTTTTGAACACAAAAGAAGATAGTCTGAAGAATGCCGGTAGCTGACACTTAATGTATCCATAGTAATCTTTTAGTCAATGCCAGCAACCAGTACTCTTTAAAATATCTTCTTCTGTGATTAACAAAAATATATATATATGTTCGTAAAGGTTTAAAACCACAAGTAAATGATTTTGATTTTTTGGTGAGCTATTCCTTTGACATTGCTACTGCCTTGCGTAAAGATACAGACTCATACACTCCATCGTTTTCCTGTTTTTTCCTAAATAGTTCTCTTTTTCTACATTTCCTCTTAG
Seq C2 exon
TCCCGTCAGACTCCCGAGGGCGAGTTTTTGCCTCTGGATCAACTTGAGCTGGATGTTGGGTTCAGTACCGGAGCTGACCAGCTTTTCCTAGTGTCTCCTCTGACAATCTGCCATGTGATCGACTCCAAGAGCCCATTCTACGACCTCTCGCTCAGGTCCATGCAAACAGAGCAATTTGAGATTGTGGTTATCTTAGAAGGGATCGTGGAGACCACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062217:ENSDART00000065372:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.013 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0100715=IRK=PU(56.0=82.7)
A:
NA
C2:
PF0100715=IRK=FE(21.6=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:
ACGCTTTTCTAATCGGCTGCA
R:
TCTGTTTGCATGGACCTGAGC
Band lengths:
355-1811
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]