GgaINT0003356 @ galGal3
Intron Retention
Description
NA
Coordinates
chrUn_random:28964598-28965725:-
Coord C1 exon
chrUn_random:28965615-28965725
Coord A exon
chrUn_random:28965509-28965614
Coord C2 exon
chrUn_random:28964598-28965508
Length
106 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
GGATTTTTTTTGTCGTCCAGGAG
3' ss Score
5.92
Exon sequences
Seq C1 exon
CTCCACTTCCAGTCCCCAAACCCACGCTGATCTCCCTGCTGGAAGGAGGGGAAGACCCCTGGATCCCAGGTGTGTGTAGCCCTGAGGCCGTGCCAGGAGACCTGCACCCAG
Seq A exon
GTGAGAGTGTGGAGTGAAAGGCGGAGGCTGGGGCTATAAAAGCTGTCTGTGATGGGGGAGTATTTGGGGCACCGTGTGCTATTTCTGGATTTTTTTTGTCGTCCAG
Seq C2 exon
GAGGTGATGGGATCACAGATATAAAGGAGGATCTGCAGGAAAGTGGTGTGGCTGAAAAGCAGTGGGGTAGCGCCTGTGTGGAAGAAATTGGAAGAGATGTCCATGTGGGCTTTGAGCAGGCAGAGCGCTTCGAGAAGCCACTGGGAGGGCATGTGGGAAAGAGAGCAAGGAACCCTGTGGACTTCAGCGTGGGTCAAAAGCAGCCTGAAGACCACGGGAGCAAGAATGCGTGCCAGAAGAAAAAGCAGAATCCATGCACTGAGTGTGGGAAAAGCTTTAAAAGGTATTCCAACCTTGTTAATCACCAGCGCATACACTCTGGGAAGTGCCGGTTGAAGTGCTCTGATTGTGGAAAGAGCTACAAATGGAAATCTGAACTCATCAAGCACCAGCGCATCCACACAGGAGAGAGACCCTATAAGTGTCCTGAGTGTGAGAAAAGCTTCATGAGCAGAACTGGATTGAAGTACCACCAGCGCATCCACACAGAAGAGAGATCCTTTAATTGCTCTGAGTGTGGAAAGAGCTTCCAGAGCAGTTCCAACCTCTTTCGCCACCAGCGAATGCATACAGAAGAGAGACCCTATAATTGTACTGAGTGTGAGAAGAGCTTCAAAATACGTTCCCACCTCATCCGCCACCAACGTATCCACACGGGAGAGAGACCCTACAAGTGCTCTGAGTGTGGGAAAAGCTTCAAAAGCAGTTCTGACCTCATTGTCCACCAGCGCATCCACACAGGAGAGAGACCCTACAAGTGTGCTGAGTGTGGGAAAAGCTACAAAAGCAATGGTGATCTGAAGTATCATGAGCGCAGCCACACAGGAGAGAGACCTTATAAGTGTCCTCAGTGCGGCAAGTGCTTCAAAAACAGTTCCCACCTCAACCGCCACCAGCATACCCACACGGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000022304:ENSGALT00000035877:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.316 A=NA C2=0.190
Domain overlap (PFAM):
C1:
PF0135222=KRAB=PD(0.1=0.0)
A:
NA
C2:
PF0009621=zf-C2H2=WD(100=7.2),PF134651=zf-H2C2_2=WD(100=7.9),PF134651=zf-H2C2_2=WD(100=8.6),PF134651=zf-H2C2_2=WD(100=8.2),PF134651=zf-H2C2_2=WD(100=8.6),PF134651=zf-H2C2_2=WD(100=8.6),PF134651=zf-H2C2_2=WD(100=8.6)
Main Inclusion Isoform:
NA
Other Inclusion 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:
TTGCTCTCTTTCCCACATGCC
Band lengths:
252-358
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]