GgaINT0002243 @ galGal3
Intron Retention
Description
NA
Coordinates
chrUn_random:44417751-44418962:+
Coord C1 exon
chrUn_random:44417751-44417861
Coord A exon
chrUn_random:44417862-44417967
Coord C2 exon
chrUn_random:44417968-44418962
Length
106 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
GCATTTCCTCTATCATCCAGCAG
3' ss Score
5.23
Exon sequences
Seq C1 exon
CTGAACTTCCAGTCCCCAAACCCATGGTGATCTCCCTGCTGGAAGGAGGGGAAGAGCCCTGGATCCCAGATGTGCACAGCCATGAGGACGTAGCGGAAGACTTTTGCCCAG
Seq A exon
GTGAGGTGGTGGAGGTAAAGAGGAGGTTGGGAATGGCAAAAGCCATCTTTGGCTGGGCAAAATTTGGGGCACCGTGTGCTATTTCTGCATTTCCTCTATCATCCAG
Seq C2 exon
CAGCAGATGAGACCTCAGGTATAAAGGAGGATCTGCAGAGAAGCGGTGTGGCCAAAAGGCTTTGGGGTAGTGCCTCCATGGTAGAAATCAGAGATGCCCAAGGGGGCCTGGAGCAAGGAGAGCACTTCAGGAAGCCACTGGGAAACCATCCGGGAAAGAGAGTGAGAAATCCCCTGAGCCGCAGCTCAGATCATGAGCAGCCTGAAGGCCTAAGGAGCGACGATGAGCGCCAGGAGAAAAGGCAGAGCCCGTGTGATGTGTCTGGGAAAAGCTTTAAGAGGTGTTCCAGTGACGTTAACGGTCAGCGCATACATCCTGGGGAGGGGCTGTACAAGAGCTCTGACTGTGAAAAGAGCTTCAAATGCGGTTCCGACCTCACTGTCCGTCAGCGCATCCACACGGAAGAGAACTGCTTTAAGTGCTGCGAGTGTGGGAAGGGCTTCAGAAGCAGTTACAACCTCACCTGCCACCGGCGCATCCACACAGGGGAGAGGCCCTACGAGTGCCACGAGTGTGGGAAGAGCTTCAGAAGGAGTACCCACCTCGTCTGCCACCGGCGCATCCACACAGGGGAGAGACCCTACGAGTGCTCCGAGTGTGGGAAGAGCTTCAAAAAGAGTACCCACCTCGTCTGCCACCGGCGCATCCACACGGGAGACAGACCCTACCAGTGCTCCGAGTGTGGGAAGAGCTTCAAAAGCAGAACTGAACTCATTTGTCACCAGCGCGTCCACACGGGAGAGAGACCCTACAAATGCCCCGAGTGTCACAAGAGCTTCAGAGCCAGATCCCACCTCAGATACCACCAGCATGTCCACACGGGAGAGAGACCCCACAAGTGCCCCGAGTGTGGGAAGGGCTACAGAAGCAATTCGGACCTCAAGTACCACAGACGCACCCACACAGGAGACAGACCCTATAAGTGCCCTGAGTGTGAGAAGAGCTACAAAAGCCATTCTGGCCTCAATGGCCACCGGCGCATCCACACGGGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000915:ENSGALT00000001344:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.368 A=NA C2=0.254
Domain overlap (PFAM):
C1:
PF0135222=KRAB=PD(0.1=0.0)
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=7.8),PF134651=zf-H2C2_2=WD(100=7.8),PF134651=zf-H2C2_2=WD(100=7.8),PF134651=zf-H2C2_2=WD(100=7.5),PF134651=zf-H2C2_2=WD(100=7.8),PF134651=zf-H2C2_2=WD(100=7.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATCTCCCTGCTGGAAGGAG
R:
CTTTCCCGGATGGTTTCCCAG
Band lengths:
242-348
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]