DreINT0114946 @ danRer10
Intron Retention
Gene
ENSDARG00000060184 | pkn1a
Description
protein kinase N1a [Source:ZFIN;Acc:ZDB-GENE-061207-17]
Coordinates
chr1:45139583-45144372:+
Coord C1 exon
chr1:45139583-45139663
Coord A exon
chr1:45139664-45140985
Coord C2 exon
chr1:45140986-45144372
Length
1322 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
CTTCTTTTTCTTTCCCTCAGAAT
3' ss Score
11.86
Exon sequences
Seq C1 exon
TTACTAAGGAGAAATCCAGAAAGACGACTGGGCTCCAGTGAGAAAGATGCAGAAGATGTAAAGAAACAGCCTTTCTTCAGG
Seq A exon
GTAAGAGAGATGTTTAATCTTTTGAAAACTGTTGGTCTGAGTTACGATTAAATTATCAATAACTCTTAAATTATCCAACTTCTCATGAAATTCTCTGCCTATTGCACAACACTTGCACTTGCACTTGCACATAGATTTGTTTCTAATGTTGGTGAATTTGGAGTATTAGAGTATCAACAGGCACAGGGCGTCAGATTGACGTTGTACCCCAACATTGTGGGACGTTGCATTTTGTTTGGAAAACGAAAATCAGGTTAACCTAAATACAACTAACTATCAACATCTAAAGATGATACAGCTTGACGTTGTGTGGACGTTACCAATGTGATATATCAGATGTTGAACTTTGGTTGCCATACCTGTCAGTATTTGACATCAATATGACGTTGGTTTAAGATATTGGCTCGATGTTGGATTTTGGTCACATTCCAACACAACCTAAAATACACACAATACATTGTAATTTCACGTCGTGATTGGACGTCAAAATAACATTGTTCTTAGACGCTGACAACCTAAATCTAACCTGATATTAACGTCTTATGATGTTGTCTGTCTGCTGGATTTAGTCTCAAAAGTCAAGTATGGCATTCACAAAACCACTTTTTTTTATTTAAAAGACAATATTCTGAAAATGTTGAAAATAAGTAACCATAAACATCCGATGTAGGAAAAACAAATACTATGGAAGTCAATGGTTACCGGTTTTCAACATTCTTCAAAATATTTTATTTTGTGTTCAACAGAAGAAAGAAACTAAAAATAGGTTTAAAACAAGTGGTGGATGAATAAATGATAATGGAATTTTCTTTTTATTGTGTGAACTATGCCTTTAATATACCTAACGTGAATAAATTGTGCAGTGGTTTTGTGCAGAACCAAGAGTTAGTTGACTGGCAAAGAGTCAAATGTTCTCTCTTGTTTAGTACCTGATAAACGTCTTGCAGTGATGTTTACTATCAATTGTAAACTGTTTAATAATGATTAATTGACAATAGTCTAGCCTTGTCAAAATAAAAGCATGAATGGCTTCTTCACAAAGGGCTACAGTTATTAAAAAAATAAAAACTTAATATCAGGGTTCCCTCGGATTCAAGGCCTGGAAAGTACTTAACATAGGTCCTTGAAAGTGCTTAAATTACATGTAAAATAAAATTTGTTTATGTGTATATTCAATGAGTTGTACTCAATTGTCAAAAACAGAAGGAAAAAACAGAGAAATCTTAAAGGGCATCTATGATGAAAATTGAGTGATATAAGTCTGTTGTTCGGGAAAACGTGGGAACCCTGTAATAAGCTTGTCTTCTTTTTCTTTCCCTCAG
Seq C2 exon
AATATGGACTGGGAGGCTCTTCTCCTCCGCAAACTCCCTCCTCCTTTTATTCCATCCATCGGAGGAAAAGAAGACGTCAGCAACTTTGATGAGGAGTTCACGACAGAAGCGCCGACTCTCACTCCTCCCCGCGAGCCTCGAGTGCTTTCGCGCAAAGATCAGGACAGTTTCCGGGACTTCGACTATGTGTCTGACCTCTGCTGAGAGCGGCTTCACTGTGATCGTGCTTATAGAGACATTTCTCCTCCGTGACCAGGAGGACAAGAGTGGCCAATTTGAGTGTGTGAATTGTGAATGTGCTGGACCTGAGAAACACTGTGATGGAGGAAAAGGTCTGGAATACAGTTAGAAATGGATCAAAGATGGAAATAGTTAGTTGGTGGCAGATTTAAAGGTGCACTTGATAAATCACACTGACGGCTAGTGGTATGGTTGAATCACACTGAAGAATTCAATTAGCCGACTGTATTGACCTTATTCTTCAGTGCGATTGTTTTAGAACAGGGTTTTTGCCCAAACTAGGTCCTGGACGTCCGGTGTATTACAGGCATCAACTTGCCTCAGCCCACCTGCACGGATGTTTCTAGAAAGCCTAGTAAAGCTTGATTAGATAACACAGGTGTGTCTGATTGGAGCTGGAATTAAACCTTGAAGGACACTGGCCCTCCAGGACTCTGGTTGCGTCCGAAATTGCATACTTCCATACTATACAGTACGCTAAAATCAGTATGTGAGCCGAGTAGTATGTCCGAATTCATAGAATTCGAAAATCGGTAGGCGAGAAGTACCCGGATGACTTACTACTTCCTGGCGAGATTTTGAAGTGCGCATCTCATGCACGCTGTGCTATCCCATAATGCCCCGTGAGAGAATTCATGAATGGAAGTGAGGCGACGCAACTGACGCAGGTAGGTCACGTGGCCATGACAAAATGGCGGATGTAGTACGTCCGAATTCCATTCATACTTTTCACATTCATACTGTATAGAACGTACTTCTATCTAACGGCCGAGTAGTACGTTTAAATTCAAATGCAGTACCTACTGAGTAGTAGGCGATTTCGGACGCAGCCTCTGTTTTAGAACTTCCGATTTAGTTACCTATGGCAGAAATGACTAGGGATAATAAACGACAGAAACGGTCAAACTACTTGCTCTGCAAACAAGTGTGTTCATGACTGTACATTAAAAGTAGAATAATACAATAAGAAAATACCACTTCGCAATATCAAGCAGCAGAACGAGCTGTTTTTAACGTCTAAAAATCAATGGAAGTCAGTAAAACTGGATGTTTGGAGACAAATAGATTCCTACACATGTGTAAAGAATAAGTTCAATACGGGTTGTATCTAAAATCGCCCCCTATCCCCTTAAATAGTGCACTCTTTGAGGCAGCAGCCATTTGTAGTGGTCTCAAAAACCATAGTGGATGTTAAAAAGTGCACTTAATCCCACAATGCACCGCAATAACCACTATACACTAAATGGCTGCATTCAAAATCACATACTTTCATACTATACAGTATGCCAAAACAGTATGTGGGCCGAGTAGTATGTCTGAATTTACCTATTTTTTCCAGCGAGATTCTAAAGTGCGCATCAGATGGATGCTACGGTATCCCATAATGCTTCGCGAGAGAATTCATGAATGGCAGTGAAGCGACACAACTGATGTCGGTAGAACATGGATCATGACAAAATGGCAGATGTAGTACATCCGAGTTCCATTCATACTGTATAGAACAGGGGACTCAAACTTTAAACACCCTCACGGCCCGCACTCCTCATCCCTCCGACCTGCAACGAAATTCGGCGCCTCCCCCCACCCTGTGGCCTTTAGTTCAGGATCACCTCTTCTACCTTAACCCCCTCACCCTTCTGATCTTTAGTTTGCAATCGTCTTCCCACCCCCGCTCTTCAGTTTGCGAACCACCTCCCTCCTCCGTTTTTCAGTTTGAGTTTGCAGACTGAAATAATATTTTTGTCTGACCACAAGGTGGCATCAATCCTATGTCTTCTTCTTCTCCTTCACTCTATAAGTAAATTATATTAGTTGACTAATGTAGGGTATAGTGAATGAGGGTATATAGGAAGCGATTTCGAATACAGACATGCACAGACATGCGCCCGAAATCGCCTACTACTCAGTGAGTACTGCATTTGAATTTAAACGTACTACTCAGCCGTTAGAAAAGTACTTTGTATACAGTAAGTCAGTAGTATGAATGGAACTCGGACGTACTACATCTGCCATTTTGTCATCATCATGTAACCTACTTCACATCAGTTGCGTCGCTTCACTTCCATTCAGGAATTCGCTCACAGTGCATCATGGGATTGCGTAGCATCCGTCCAATGCGAACTTCAGAATCTCGCCAGAAGTAGTAGGTCATCTGACCTACCGTTTTTCGAATGCTATACGGACAGACTACTCAGCTCGCATACTGTTTTAAGCGAACTATATAGAATGGAAGTACGCAATTTCAAACGCCGTTATGGATTATTTTTAATTGGCCGTCGTTGATTTATGCTTGTCATGTGATCTCAAATTGGTGACCCTCTTCACCCAACCTTTTATCCTGTAGATTTAAATTGATTTTATTAGCACAGCAAACATTGAACATTCCAATATGGTTTCTGTTTGGTTCCCATTTGAGTATTTTTGGAAACCTAATAAGAACGGGAGGCTTTTTAGGGAGGCTGCTTGAAGAGAACTGTTCCGGGAATGTTTTATTTACACTTTTTAAGAAAACTTTCCTGGCAAACCAACAGAAAACATTCTGGAAACCAATAATGGTATGACTTATATGTAATCATAATATACGTTTAAAAATAGAAGAAAAAACTATCAAGTGCATCGTTAAATCTGCTAAAATTGATGGTTTGTCTTAAAGTGTCATATGCGCTTTTGAATAATGCATCTTGTCTTATGAAAGACATTGTGAAGATCTTTTATAAAACTAGAAGCAAGTCAATAAAGGTCACACAGAAACATCTCATGGAACTTTTACATGTAAACGTTACGAGCATGTTGGGAAGTGTATTTCTGTTCACTCTTTCTCCATTCTTCTTATAACTATTCTAACAGGATGATACTGTTTGAATAACTTTCATTATCCAGACCCGATGTGGACCACAAACTCAAAGGAACTTGTTTAAGGGACTCTCCTGCAGACACTGTGACTTTAAATGTAAAAACGAGATAGACTGAGAGCAGAATTGTTGGCTGATTTACAGTAAACTTGATGAATGTGTCCCAGCTCTTAATGGAGTTTAAGCCTCTTTAGACTTGTTTAGTCTGGGTTATTTCATATCTAAATACATCATGCGCTTCATCTGTTACATGTGGAAGTCAAGCATATTGAAATACAGAAGAGCAGACGTGTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060184:ENSDART00000132555:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.259 A=NA C2=0.328
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PD(9.6=92.6)
A:
NA
C2:
PF0043319=Pkinase_C=WD(100=69.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAAAGACGACTGGGCTCCA
R:
AAATTGGCCACTCTTGTCCTCC
Band lengths:
342-1664
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]