RnoINT0088913 @ rn6
Intron Retention
Gene
ENSRNOG00000004437 | Map2k6
Description
mitogen-activated protein kinase kinase 6 [Source:RGD Symbol;Acc:620666]
Coordinates
chr10:98803131-98804724:+
Coord C1 exon
chr10:98803131-98803208
Coord A exon
chr10:98803209-98804584
Coord C2 exon
chr10:98804585-98804724
Length
1376 bp
Sequences
Splice sites
5' ss Seq
ATGGTAACC
5' ss Score
5.31
3' ss Seq
CCCCCCTTCCCTCCTTTTAGATT
3' ss Score
13.14
Exon sequences
Seq C1 exon
CCTGAACGAATAAATCCAGAGCTCAACCAGAAGGGGTACAGTGTGAAGTCTGACATTTGGAGTCTGGGCATCACCATG
Seq A exon
GTAACCTATATCATCATTGCGGGCCACAAGGTTCTGAGTGCAAACCCACAGACGGGGTGGGCTTTGGGGACCCAGAAACAAATGCTCCTGATACCACACTCGAGCACCCTCTCCTGTCTGAGAGAGCGGGCTGATTTCCAGGGCTGATTGTTGGCAGTGCTGTACAGTGGAAACCGTACAGTGAGGTCTGGCAGTCCAAATTTTCCTCCTTTTCTGACTTTTACCAGTCATATGACCTTCAAAGACTCACGTATTCTCACTGGCGATCTTCCTGATCGAAAAGGGATTAATAGTTTTTTTTTTTTTTTGGTAGTTTAAATGAAAGGATCAGGATCAAGACAAGAAGCTTAGGTTCCAAAACCAGGACAACAACAAAACAAAACAAAACAAAACAAAACAAAACAAAAAAACCAACCCCACCCTGCTAACGTGTCTGGCCTCTGATAAGCCAAGCACTAGGTCATGTACTTCATTTTAATATTTTGAGGCCAGATCTCACGTTGCCCAGGCAAAATTGAACTTCCGACCCTCGTCTCTCCACTCCCAAAGTCCTGGCATTGCAGGCACGCACCATCATGCATAGTTTGCTATCACGCTAGGGGTTGACCCCCGGATTCACGGCTGCTATTCAAACACTCTGCCAGCTGGGCAAGGTCCCAAACTCTGCACGGAACACTGTCCGGGTGGAAGTTTTGGCTGTTGAAGTTTTAGATCTATCCTCGGAACACGATAAGGGATACCGTACTTTCCCCAGCACGGCCACACAGCCAGTGCCTTATCTGTAACCTCTGTGACTGTACCTTTTTAGTATATCGCTGAGGTCTGGAATTACCCACTGCGGTCCTGGCTACTGCCCAGTGAGTTATTCCATGTCCCTGCCCAGAAAACATGTGATTCTGTAATGATTCTTGAGTGGCCTTCACTCAAGTCCAAAAAAAGATCAGTCAGTCATTGGGTCCTGGGTAACTTTTTTTTTTTTTTTTTTTTTTTAATGTTCCATTTCACCAAGAGACCTGTAGGTGGCACCAGAGGCACAGTGCTGCCAAAGTCTAAGAATTCCCATTTGGGCCAGAAGTTTGAAAAACTGGTTCTTTCCTGTGTTGAACTTTAATGCTGTTGGCTGATAAGTTTTTTTTATGAAATAGGTCCGGGTGTTATCAAGGGACTCATTTATTTAGGTAGGTGTAACTATTCGTCACTGGTAAGATAATATTTAAAGGAGCAGTCAGCACTACGATTTTGTGAGAACAGATTATTAGCTTGTTTTTCTTCCCTAATTGTACTTGATCTTCGTCTCTAGTCCTCCTAAAGGGAAACACAGCTGCTTCCTAATGAGCGTTCATTAAATGGTTGCCTCCCCCCTTCCCTCCTTTTAG
Seq C2 exon
ATTGAGCTGGCCATCCTCCGGTTTCCCTATGATTCTTGGGGAACGCCCTTCCAGCAGCTAAAACAGGTGGTAGAAGAGCCGTCTCCACAACTCCCAGCGGACAAGTTCTCTGCTGACTTCGTTGACTTTACCTCACAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004437:ENSRNOT00000006217:9
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=0.021
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(10.4=100)
A:
NA
C2:
PF0006920=Pkinase=PD(18.7=95.7)
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:
CCTGAACGAATAAATCCAGAGCTCA
R:
CACTGTGAGGTAAAGTCAACGA
Band lengths:
218-1594
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]