GgaINT0145702 @ galGal3
Intron Retention
Gene
ENSGALG00000003939 | KLF2
Description
NA
Coordinates
chr28:3942658-3943745:-
Coord C1 exon
chr28:3943671-3943745
Coord A exon
chr28:3943550-3943670
Coord C2 exon
chr28:3942658-3943549
Length
121 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
CCTTTTCTTTCTTCCCCCAGAGG
3' ss Score
11.87
Exon sequences
Seq C1 exon
ATGGCGCTGAGCGATACCATCCTGCCCTCCTTCGCCACCTTCGCCAGTCCCTGCCGCGAGAAAGCGCTCCACGAA
Seq A exon
GTGAGTGCGGCCCCGGCCCGGCTGAGCCCCGCTGAGCCCCCGCGGCTCTGCCCGCCCCGCTGCCCCCGACCCCCGCTCCCGGCCGCACCGCTAACCTTCTCCCTTTTCTTTCTTCCCCCAG
Seq C2 exon
AGGTGGAAGTGCGAGCAGGAGGCCAAGGCCCCCGGCGGCACCTGGGGCGACCTCTCCCCACGCAAAGAGGATGAAGACCTCAACAACGTGCTGGATTTTATCCTTTCCATGGGCAGCGACGGCTACGGCCAAGGGGCTGCCGGCGGGGACTATCCCCCCGCGCAAGGGGAGAGCGGAGGCTTCTACCAGACAAACCCGAACCCGGGATGCTACAGTGCCCTGGAGCAGGGCAGCCCCCCGCCCTACAGCGCCGGCATCGCTCCCGAGATGATCCGCCCTGAGATGGACTCCAACTACTGCCCGGCCGGCAGCGTGCACGGGCGCTTCTTCGTGACGCCCAGCTTCGGGGCTCCGCAGTTCGTGGACAGCATCAAGCCCGAGCCCGACATGGACAGTTATGGGCCAGTCCTGGGTCTGGTGCCCCAGGCTTGCCCGAAGATCAAGCAGGAGGGCAGCGCGACCTGCATGATGGCCTACGAGCAGCCGCGGGTGGCCAACTCCCCACAGATCCCCGGCGCCGAAACACCACCGCTGAGCCCCGACGATCTCATGGTGAATGACTGCCACACGCAGATGATGTGCCCCTCGTCCGTGTCCTTCCAGCAGAGCTACCACCCGCCCTCCGGCTTCCACCACCCCCAGACCCACCTCCAGTACCAGAACACCTCCCAGTACGGCCTTTTCGAGGACAGCCTGCCCCTCCAGCCCTCCGCTCCCCGGGGTATGCTCACCCCTCCTTCCTCCCCGCTGGAGCTGCTGGACTCCAAGCCGAAACGAGGCCGGCGCTCCTGGCCCCGCAAGAGGACGGCCACGCACACGTGCACGTACGCGGGCTGCGGGAAGACCTACACCAAGAGCTCCCACCTGAAGGCCCACCTGCGGACACACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003939:ENSGALT00000006275:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.523
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134651=zf-H2C2_2=PU(35.7=3.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATACCATCCTGCCCTCCTTCG
R:
GTTTGTCTGGTAGAAGCCTCCG
Band lengths:
257-378
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]