GgaINT0005858 @ galGal3
Intron Retention
Gene
ENSGALG00000007388 | SRRM4
Description
NA
Coordinates
chr15:9999218-10000485:-
Coord C1 exon
chr15:10000148-10000485
Coord A exon
chr15:9999431-10000147
Coord C2 exon
chr15:9999218-9999430
Length
717 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
GCCCAAATATGCGTTTGCAGAGG
3' ss Score
5.75
Exon sequences
Seq C1 exon
ATCTCTCAGTCAGGGTCTTCTGCTGACCTCTTTACCAAAACAGACAGCCCTCCTGGCCACCTAGCCAGCCAGAACGGAGAGTGTCATGAATATGACTCAGGAAACGACACTTCTTCCCCTCCCTCCACTCAAACGAGCTCATCCAGGTCAAAGGACAGCCAGGAAAAACGAAGTGTAGCCCACGATGGCTTTGGCCATGCCTTCTCATCCGGGAAGCCCAAAGTGGCCAACGGTGATAACAGCTCTGATTCAGGAAATTCCTTCACCAGTTGCTTTTCCCAGACCAAGGCAATGGCTTCGGAAAATCTGTCTCCAGATGCCCATGGACAAGACCAAAG
Seq A exon
GTCAGTGATTATCAGCATCTGCTGGTATTTATTGCTCTGTATCTCCTGCCCGCATTCTCGATGCACTGGTGATCTGGCAGGGAGGTTTTTGTGGTCTGGAGTTGGTTAGATCTCAATCAGACCTTGCCAGTCTGGAGTCCAGAGCTCACAGTGAGCAATGCTGGAGCCTGAGGAGGAAGATGAAAACCCAGCCACAGGTTGTCATCAGGAGAAAGGAATAGGTGTCAGCTCCATCTCTGCCTCCCTTTCCTGGGATGTGCCAAGTGGTGGTGGGGATGAAGGAGCAGAGGCACGGCAGCTGGTACCCAAAGCTGTACTGGAGCAGTGGTGTTTGGGAGCAGTTCCACCTTGGGCCTTAAATGCCAAATGTTAGAGCCAGGGGAGTTGGTATTAGGAAGAACAAGTCCTGAATTTTCAGTTGGAGGGTAACACGTTGAGGCTGTACATACTTCTCACGTTGCGACTCCAGCGAGATAACTCTGCCTTCACATGGGTGGAGCTGGGATTGCAGCTGGTCCTTACTGTTGGGAAGCTGACCCCAGTTCACATCCATGGCTCTTCTGGAAGTAGAGGGATTCCCACAGCCCAGTCCAAAGGCAATAGGACATGCCTGCTCGCTCTGCTCCTGGAGCACAGCCCTGACACGCTTTCCTTGCTCCTCACCCCAACCCCAGAGCATGGGGCAGAGGAGCTGACCGCCCAAATATGCGTTTGCAG
Seq C2 exon
AGGATGCCTGTCCTCGTGTCTCAGCTGTTCAGAGGATAAGAAGCGCAGTGTCCCCCCATCTCCAGCCCGCAGCTCACCGCTCAGGCCGTGCCCCCGCAGCGAGTCGTGCAGCAGCACAGGACGGTCCTCCCCCGGCTCCAGCCGCTCCTGCTCCTCACCCCGCAGGGCCTCCCCCAGGTACTCCCGCAGCAGGTCCTGCTCTTCAGGGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007388:ENSGALT00000011947:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.956 A=NA C2=0.806
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CAAAACAGACAGCCCTCCTGG
R:
GGGACACTGCGCTTCTTATCC
Band lengths:
357-1074
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]