GgaINT0081300 @ galGal3
Intron Retention
Gene
ENSGALG00000013635 | SCAF8
Description
NA
Coordinates
chr3:52254083-52255002:+
Coord C1 exon
chr3:52254083-52254163
Coord A exon
chr3:52254164-52254777
Coord C2 exon
chr3:52254778-52255002
Length
614 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGT
5' ss Score
8.31
3' ss Seq
CCTGTGTTATTTCTCTACAGCTT
3' ss Score
10.26
Exon sequences
Seq C1 exon
GTTTTATGCCTCCCCCAGTTCCTCCTGTTGTCCCTCCTCCTGTTGTGCCACCACCTGTTGTACCACCAGTTGTTCCAACAT
Seq A exon
GTAAGTTTGATTCTTCTCATAGTTATTGTATGTCATTAAAAGCTTAATTGTTTGATATACTGCTTGTCATTTAATGAAAACTATATTAATCCTTTCTAATGGAAAATAGTAACATACCAGGTTATTGCATAGCTTTTCTAAGCAGGTATTGATGGAAGGATTTACAGAACTTTTCAAGTTGTCTGAAAAACAATAGTTACCATGGAGTAACTGGGGGAAAAAAAAAAAAAGACAAATGAATTATTTAATATTTGTATGCATAGTTTAATATTTGAACTTGGCTATAACAGATGTGTCTATTCCTTAAGCTATCGAGCGTTAGTTGCTGAATAATTTATAATGATTTATTTTTGGTTAGCCTTTTAACTGTTACCAATTTAACATGTAAGAGTGTTTTCAAAGAGTACTCATTGGTTATGGTGCCTGCAGTTCATATTCTCTATAAAAATAAGTAAAGATTAGAGTGCTGATTGAACATAAAAAATGATTATCAAAACCACTATAATTCTTACAGTAATTAAAATGATTTTGATTGATTATCTTGACATCTACCAAACTAAACATGGAAAATGAAAATATGGTTACTATGATGCACCTGTGTTATTTCTCTACAG
Seq C2 exon
CTTTAGTACAGCCTCCATTGCCAATTACTCAAGAGACGATGAAGGATGTACCTTTTACTGGCCTGGTTCTACCAGTTGTTGGCACAGTTAGTAGCAATCTAGCCACTCCAACGTTATCTTCTGGAAGCATCTTTAATCCTTTGCCAATCAACAAACAAGAATCTGATGAAAAGGGATCTCATCTTACAGACCTTCAGATTTCTTCCAGTGAAAATGGTAGAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013635:ENSGALT00000022182:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.857 A=NA C2=0.697
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TTTATGCCTCCCCCAGTTCCT
R:
CAGCTCTACCATTTTCACTGGA
Band lengths:
304-918
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]