RnoINT0079854 @ rn6
Intron Retention
Gene
ENSRNOG00000014205 | Klf2
Description
Kruppel-like factor 2 [Source:RGD Symbol;Acc:1359220]
Coordinates
chr16:19223830-19225037:-
Coord C1 exon
chr16:19224966-19225037
Coord A exon
chr16:19224638-19224965
Coord C2 exon
chr16:19223830-19224637
Length
328 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CCGCGCCCTGTCTCCTGCAGCGC
3' ss Score
10.96
Exon sequences
Seq C1 exon
ATGGCGCTCAGCGAGCCTATCTTGCCGTCCTTTGCCACTTTCGCCAGCCCCTGCGAGCGCGGCCTCCAGGAG
Seq A exon
GTGAGGGCAGCGAGGGTCCGCGGGCGGCGGGGTATCAGGGTATCAGACCATAGGGTGCAGGAGCGAGTACTGGAGATGACAAGGTCCGGGGTGCGGACCGCTGGCGGCGGTGGGAGACCGACCTCAGGGCGCCGGTAGTTAGATTGTCATCCGTGAGGACTTAGACCTCAGGCTGTGGGGCAGGAGGGAGGGTGCAGGGACTGAAGACACGCGCGCCGAGGGATGCCGTGCACTGGGTGCAGACCCCAATGGCCTAGGAGTTAGACTTTGGGGTGCAGGGTAGCAGGAGGAAGCCCCGCGCTCACGTCCCGCGCCCTGTCTCCTGCAG
Seq C2 exon
CGCTGGCCGCGAAATGAGCCCGAGGCGGGCAGCACGGATGAGGACCTAAACAGCGTGCTGGACTTCATCCTGTCCATGGGACTGGACGGCCTGGGCGCCGAGAACCCTCCCGAGCCCCCACCGCAGCCCCCGCCTCCTGCGTTCTACTACCCGGAGCCGGGTGCCCCTCCGCCCTATGGCACCCCGGCGGCTGGCCTGGGAACGGAGCTGCTGCGCCCGGATCTGGATGCGCCTCAGGGGCCGGCTCTACACGGCCGCTTCCTCCTCGCGCCTCCCGGGCGGCTGGTGAAAGCCGAGCCCCCGGAGGTGGACGGCGGCGGCTACGGGTGCGCAGCCGGCTTGGCTCGCGGACCGCGCGGGCTGAAGCTCGAGGGCGCCCTGGGAGCGACAGGTGCATGCATGCGGGGTCCTGCTGGCCGTCCCCCACCGCCCTCCGACACGCCGCCGCTCAGCCCCGACGGCCCCCCGCGCCTCCCGGCGCCCGGTCCCCGCAACCCGTTCCCGCCACCCTTCGGCCCCGGCCCCAGCTTCGGCGGCCCCGGCCCCGCGTTGCACTACGGGCCGCCCGCTCCCGGCGCTTTCGGTCTCTTCGACGACGCGGCGGCGGCTCTGGGTCTTGCTCCCCCTGCCACGCGCGGTCTCCTCACGCCGCCCTCGTCCCCGCTGGAGCTGTTGGAGGCCAAGCCCAAGCGCGGCCGCCGCTCCTGGCCCCGCAAGCGCGCCGCCACGCACACTTGCAGCTACACCAACTGCGGCAAGACCTACACCAAGAGTTCGCACCTAAAGGCGCATCTGAGGACGCACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014205:ENSRNOT00000019052:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.807
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134651=zf-H2C2_2=PU(35.7=3.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATCTTGCCGTCCTTTGCCAC
R:
GGGCTCGGCTTTCACCAG
Band lengths:
355-683
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]