GgaINT0054948 @ galGal3
Intron Retention
Description
NA
Coordinates
chr5:15876867-15877898:-
Coord C1 exon
chr5:15877734-15877898
Coord A exon
chr5:15876962-15877733
Coord C2 exon
chr5:15876867-15876961
Length
772 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
3' ss Seq
TGCATGTTTCAAATTCACAGATA
3' ss Score
7.07
Exon sequences
Seq C1 exon
GTCTCTGTGGAAACTTCAATGACATTCAGACAGATGACTTCAAAACCACAAGTGGCGTAATAGAGGGCACTTCAGCTGCCTTTGGCAATACTTGGAAAACTCGGGCTGATTGTCCTGATGCCAAAATTACCTTTGAGAACCCCTGCACCCTCAGCATAGAAAATG
Seq A exon
GTAAGCTCAGGATATAGTAAACTTTTCTGTTCTCTTTTAAGATAGAAAGAAGAAATGAGCTGATCAACCACAAAGCATTTAGCCAAAGTAACAGTGGACCATTTGCTTACACATGCTATTTTACTCAGCAGACACTAGAAATTTTCAGTTAATAAGTAGTAAGTAGTTCAATATTTTGGATCTTCAGAAATATTCCTTTGGCTAAAGGAAGCCAGTGTTGCTTTTGCCCATTTACCTAAAGGGAACTGGAATCATACAGCATATAAAGAATCTATTCCTGGAAAGCACTGGTTGTTATATAGGGGGAAAAAAAAGCTGCGCATAACTCAACTGAAGGCTGGAGGACTCACTGTCGTCCTTCTGCTATCAAACTATGAACCAGACTTATAGTTCATGAACGACTTCATCGCTCTCCGAATCTTAAGAATTTCAGCCAAAGAAACACTTAAGTTTTCATCATCCACAACCACTCTTCAGTTTTTTAAGATGAACTACTGTACTTCTGATTTGCAATGTGATTCTTCTTTATCATAAGACATCTAAGACATTTTAGTTTATTCCACAACAACTACCATAAATTAAGAGCACTCGGTTTATGAAGAAATATTATTTTTGTACAGATGATGCAGAATATTGGTAATATTTAAGGAAATGAACAGTTGAATTCCAATAAGTTAAACCTCTCTAATTTCACTGCAGGAAGTAATGTTACATAGAAACAAGAATTTAGGCAATGAAGTGCAGTATTAATTTGCATGTTTCAAATTCACAG
Seq C2 exon
ATAAGTATGCTCAGCACTGGTGTGGCTTGCTCTCTGATACTACGGGACCTTTTGCTGAATGTCACTCAACAGTGAATCCAGAAGTTTACCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006740:ENSGALT00000010867:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009420=VWD=PD(12.3=33.9),PF087426=C8=PU(0.1=0.0)
A:
NA
C2:
PF087426=C8=PU(37.8=96.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTCTGTGGAAACTTCAATGACA
R:
TCTGGTAAACTTCTGGATTCACTGT
Band lengths:
258-1030
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]