DreINT0086855 @ danRer10
Intron Retention
Gene
ENSDARG00000042667 | klf2a
Description
Kruppel-like factor 2a [Source:ZFIN;Acc:ZDB-GENE-011109-1]
Coordinates
chr22:15872756-15874649:+
Coord C1 exon
chr22:15872756-15873650
Coord A exon
chr22:15873651-15873755
Coord C2 exon
chr22:15873756-15874649
Length
105 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
AATCCTCTCTTCTTTCATAGGCG
3' ss Score
10.56
Exon sequences
Seq C1 exon
AGGTGGAAGGATGAACTGGACAGGTCCATGCATCTCAGCTGCATAGCTGACCTATCTAACATGGACAACCTCAACAGAATAACAGACGACGAAGATCTTGACAAGTACCTGGATCTGGAGTTTATACTGGCCAACACTGCAGGTTCTGACAATCTCGGACTCGGCATGGCAGGCGACTACAGAATGCAAGAGTCCAGAAACATGTACAACCCGACTACATACTCGGTGCCTGAGATCAACCCATCACCACCTCCACCGTACACCACCAGCCTCATGGCAGAGCTTCTGCAGTCTGACATTGACACCTACTGCCAACCGTCTCTCCAGGGAAGATTCCTAGTCAGGCCTGCTTTCCCCACTCAGGACATTTCGGAGTGTATCAAAGTGGAGCCCTGCATGGATAGTTACGGACCTGTACGAGGAATGGTTCCCAAAGTCAAACAAGAGGGCAACGGTGCATGCATGAGATCCTATGAGCAGCCAAGACTAGCCAACTCTCCCCAGGGAGCAGGCAGCATGACTCCCCCACAGAGCCCTGCGGAGCTCATCAACACAGACTGTCAGTCACACTCGCAGATGTGCCATGCCTTAACGTTCAGCCAGAGCTATCAAGGCAACACAGGATTTCCCCACGCAGCACCTCCACAGATGCAGCTGCCTTACCAAAGCACACATCACTTCAGCATGTGCGACGATGGGCTTGCAATGCCCAACGCCAACCAAAGAGTACTTCTGACACCACCCTCATCTCCTCTAGAGCTGGACGCCAAACCAAAGAGGGGGCGCCGCACGTGGCCGAGGAAACGCACGGCGACTCACACTTGCACTTTTTCTGGATGTGGCAAAACTTACACAAAAAGTTCTCACTTGAAGGCTCATCACAGAACACACACAG
Seq A exon
GTAAATAAACGCCACTTGTTTTGTGTTTTCGTAAGATCTATCATAATTAAGTTATAATTAATCTAAAACTGGACAGATTTTAATGAATCCTCTCTTCTTTCATAG
Seq C2 exon
GCGAGAAGCCCTATCATTGCAGTTGGGAAGGCTGTGGGTGGAAGTTCGCCCGTTCTGATGAATTGACCCGTCACTTCCGCAAGCACACCGGACACCGACCCTTCCAGTGCCACCTGTGCGAACGTGCCTTCTCCAGGTCCGACCATCTCGCCCTTCATATGAAACGTCATATGTAGGAACGGACTCTGGAAAATGTGGACTAAACGCACTGAACAGTGAACATTGTCTGTACCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCTCTTATTTAAAGTATGGTGAAGGGGAAACATGAACTGACTTGACCTATTGCTTGTAGCTGGTTCTACACTTCAATTCTTTACAGAATTTACAGAAACAAACTATATTTTTCGTTTCCAAAGAGCAAGTTCAACTCATACTATAGGCTGGACCTAAACCTCAAGACGGAACTGGAATCAGACAGTATAATGTGCTTTAAGTTAACATGATGTGCTGCGGACATCACGACAGTGCCTTTTAATATGCGTATACATCTCACGAGTGCCACGAATACTGGCGTTTTTTTTAACGACAAATGTATGCTATTGTGTCAAGAAACTAAATAAGCTTTGTAAGACAATGTTTTCCTCTTTCAAAACTGCCTTAAAAGTTAACAAAAGGGGCGTTAACTGAATGTTTTAAGTAATTTGTGCATTTATCGACATAAACGTTTTTATTTTTAAAAATCAGGGTCTTATGGTTTCGTTTTTTTTAAACGCAATTTGTATGCTGTTAACGTTGAATTGCAGACTGTCCCATGTTTGGATGACATGATAAGGGCTATGTGAGTTGTTCTGGACCAAAGCATTTTATGTACATAATTTATACACTGTATATATTGTACATATTAAACTTAAATTGCGATATAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042667:ENSDART00000062587:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.421 A=NA C2=0.103
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=PU(35.7=3.3)
A:
NA
C2:
PF134651=zf-H2C2_2=PD(60.7=28.8),PF134651=zf-H2C2_2=WD(100=44.1)
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:
CCCAACGCCAACCAAAGAGTA
R:
TCATCAGAACGGGCGAACTTC
Band lengths:
248-353
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]