GgaINT0125705 @ galGal3
Intron Retention
Gene
ENSGALG00000001037 | SCAI
Description
NA
Coordinates
chr17:10266510-10267262:+
Coord C1 exon
chr17:10266510-10266608
Coord A exon
chr17:10266609-10267109
Coord C2 exon
chr17:10267110-10267262
Length
501 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
TATTCTGGTTACCTTTTTAGGCA
3' ss Score
8.34
Exon sequences
Seq C1 exon
GAGCTTTCAGATGAGATTGAAGACTACACTCATCGTTTTAATACTGAAGATCAGGTGGAGTGGAACCTGGTTCTTCAGGAAGTGGCAGCTTTTATTGAG
Seq A exon
GTGAGAATACCATTTCTTTCTGTCAGTTTAAGGTAAATTTTTGACTTCTTCACCAGAGTGTTTCTGTGTCACCACCTCTGTGCTTAGCAGGTGTGCCGTGTGGAAGGACTGTTGTTGCCCAATTAAATCATTGAAATGTGCTTATGGTAGTGTAGCAGTGACAGCTGTTCAAGTGCCTAAAGAGTCAGACCTGGTCATACAACGTAGTGAAGACAGAATCGTGAAGCTGAGACCCACTTGGTCACCTTTTTATTTCTGCTGCTGTGGAAGCCATTTCTATTTGCTCATGTGGTTTTTTTTTTTTTTTTATGTGTCAAGGTGTACTTTGATTGTTGGAGTGCCTTTCCTTTGTGGCTTTCATACAGACAAGGCAAATTAATTTTTAAAATTAACCTTAATTTTGAGAAGTTTGTAAGTGAGAAGACACTGTCTTCTCTAACTACACTAAATGCAAACCTGTGTGTTCTGTGAATTCCTGATTTATTCTGGTTACCTTTTTAG
Seq C2 exon
GCAGACCCTGTAATGGTTTTAAATGACGACAACACCATTGTAATCACCTCCAACAGGCTTTCTGAAACTGGAGCTCCATTGCTGGAGCAGGGAATGATAGTGGGACAGCTTGCTCTTGCAGATGCACTGATTATTGGGAACTGCAATAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001037:ENSGALT00000001535:6
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:
PF120703=DUF3550=FE(6.8=100)
A:
NA
C2:
PF120703=DUF3550=FE(10.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCTTTCAGATGAGATTGAAGACT
R:
ATTGCAGTTCCCAATAATCAGTGC
Band lengths:
246-747
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]