GgaINT0042859 @ galGal3
Intron Retention
Description
NA
Coordinates
chr6:18627461-18628302:+
Coord C1 exon
chr6:18627461-18627669
Coord A exon
chr6:18627670-18628242
Coord C2 exon
chr6:18628243-18628302
Length
573 bp
Sequences
Splice sites
5' ss Seq
TTAGTAAGT
5' ss Score
7.79
3' ss Seq
TAACTCTTTCCTTCTTCCAGTGG
3' ss Score
9.24
Exon sequences
Seq C1 exon
ATGGCGGACACATTTGATCACAGTGTCATTTCTGTTGGAGAAGAGGAAGGAGCAGACAGTTTCCAACGATCTCTTCCAACACGAGATTCTCTCCGATCCCCTCGAGGCTCCATTGTGAGTTTCCATAACATCCAGTACTCCGTTAAGCAGTCCAGTGGATTCCTATGTAGACGGAAGACTGTGGAAAAGAAGATCCTTCATAATGTTTA
Seq A exon
GTAAGTTCTTGCTTAGCCAAAATACCGTGGGGTGGAAATTAATCTGCTGCTGTGAGTTGGTGATGTGATTATTACCTTCCAGACCCAGCTGTACTGGTAGAGAAATGACTGCCCTCCTGCCAGTCTGCAGTTCATGTGAGCACTTGCTATAACATGTTTTAGGCATAAAAGTATGGAGTATAACTGGAGCAGTGTCAGTCATTGATGTAAGAAAATTAGGACCAAACTTGTGTGAACAGTGCTGCCTGAAGATCTGAGGATTTCCTTAACTATGGTCTGAGTTGTGGTGGGAGGAAGTGAGTAACAGAGAGCCGTTGTTTCTTTTCCAGACCCAACTCAGCAAGAAGACAACTCCTATTCTGTATTTTGTAGGTTACTTTTGATGCACAGCTCTAATTCTGTTCTGACTGGCAGTTTGGGACGAGAAAGGAAAATGCTTTCTGATTTCAGATTTAAGAAGGCTTTAATAATCTTGAAGTTTTCCTTTCAACAGCATTTTGTTCACACCTTACCTCTACTATGAGCCACATGTGAACAGTCTCCCATTTGGAAATAACTCTTTCCTTCTTCCAG
Seq C2 exon
TGGCATTATGAAGCCAGGCTTGAATGCTATCCTGGGGCCAACAGGGAGCGGCAAATCTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005792:ENSGALT00000040097:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.129 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PU(2.6=5.7)
A:
NA
C2:
PF0000522=ABC_tran=FE(13.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCGGACACATTTGATCACA
R:
GAAGATTTGCCGCTCCCTGTT
Band lengths:
268-841
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]