GgaINT0145703 @ galGal3
Intron Retention
Gene
ENSGALG00000003939 | KLF2
Description
NA
Coordinates
chr28:3941787-3943549:-
Coord C1 exon
chr28:3942658-3943549
Coord A exon
chr28:3942313-3942657
Coord C2 exon
chr28:3941787-3942312
Length
345 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
ACGCTGTGCTTCCCCGACAGGTG
3' ss Score
11.26
Exon sequences
Seq C1 exon
AGGTGGAAGTGCGAGCAGGAGGCCAAGGCCCCCGGCGGCACCTGGGGCGACCTCTCCCCACGCAAAGAGGATGAAGACCTCAACAACGTGCTGGATTTTATCCTTTCCATGGGCAGCGACGGCTACGGCCAAGGGGCTGCCGGCGGGGACTATCCCCCCGCGCAAGGGGAGAGCGGAGGCTTCTACCAGACAAACCCGAACCCGGGATGCTACAGTGCCCTGGAGCAGGGCAGCCCCCCGCCCTACAGCGCCGGCATCGCTCCCGAGATGATCCGCCCTGAGATGGACTCCAACTACTGCCCGGCCGGCAGCGTGCACGGGCGCTTCTTCGTGACGCCCAGCTTCGGGGCTCCGCAGTTCGTGGACAGCATCAAGCCCGAGCCCGACATGGACAGTTATGGGCCAGTCCTGGGTCTGGTGCCCCAGGCTTGCCCGAAGATCAAGCAGGAGGGCAGCGCGACCTGCATGATGGCCTACGAGCAGCCGCGGGTGGCCAACTCCCCACAGATCCCCGGCGCCGAAACACCACCGCTGAGCCCCGACGATCTCATGGTGAATGACTGCCACACGCAGATGATGTGCCCCTCGTCCGTGTCCTTCCAGCAGAGCTACCACCCGCCCTCCGGCTTCCACCACCCCCAGACCCACCTCCAGTACCAGAACACCTCCCAGTACGGCCTTTTCGAGGACAGCCTGCCCCTCCAGCCCTCCGCTCCCCGGGGTATGCTCACCCCTCCTTCCTCCCCGCTGGAGCTGCTGGACTCCAAGCCGAAACGAGGCCGGCGCTCCTGGCCCCGCAAGAGGACGGCCACGCACACGTGCACGTACGCGGGCTGCGGGAAGACCTACACCAAGAGCTCCCACCTGAAGGCCCACCTGCGGACACACACAG
Seq A exon
GTAAGCTCGGCAGGGTGGGAGGGCCGCCTGCATGGAGCGGTTTGCAGCAGCATGAGCTTTAACCCCGTAGCGTCCCGGTCCCCGAGCGCTCACAGCTGGGCTGCGACAGGTGGTCAGACCGAGAGTGTCTGTTTGGGGGTCAGGGCTGTCCCAAGGGCGGCTTCCAGTGCCCTTCCTCAGAAGGTTCTCAGGACGGTAAAGCAGTGGGCAGAGCGGAGTCGTGGCTCTGCGTTGGATCTGGCTGTGGAAGGGAAGGGCTCAGCGGGGCACGCTGGGATGAGCACTGAGCGCTGCGCTGCCGGGCGTGGGAGTGCCGCGCTGAGTCACGCTGTGCTTCCCCGACAG
Seq C2 exon
GTGAGAAGCCGTACCACTGCAACTGGGAGGGCTGCGGCTGGAAGTTCGCCCGCTCCGACGAGCTCACCCGCCACTACCGCAAGCACACCGGGCACCGGCCCTTCCAGTGCCACCTCTGCGACCGGGCCTTCTCCAGGTCGGACCACCTGGCCCTGCACATGAAGCGGCACATGTAGCCGCGGGGCCCACCGGACAGTGCCCGTTGTGAGCTGCTCAGGTGCAGGACGCTCCGAACCTGTAGCTGGTACTACGTGGGGAGGCGCCGGCGCTCCGGCCGCCGAGGATTGGACACAGGGAGGCCCAGCAGTCGTCTCCTGCACAGAACCTGACGAGGCGGCGTCCGCGAATCTGCCCGCGCCGGGCGGGGAGGACGGGGGGTTATTTATGCAGCTTCTGTGAAGGGTGAACTCCGTGAGGCTCCACACGGATTGTATAGAAGAAGCTGTAAATATCGTTTTTTCTGTTCCGGCTCTAACTGCCCCAAGCTTAACGAGACAATGTTTGTATGGAAACTGCCTGAAGTTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003939:ENSGALT00000006275:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.523 A=NA C2=0.069
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=PU(35.7=3.4)
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
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTATGCTCACCCCTCCTTCCT
R:
GCTACATGTGCCGCTTCATGT
Band lengths:
348-693
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]