GgaINT0048895 @ galGal3
Intron Retention
Gene
ENSGALG00000010900 | SPC25
Description
NA
Coordinates
chr7:20394873-20395539:+
Coord C1 exon
chr7:20394873-20395389
Coord A exon
chr7:20395390-20395473
Coord C2 exon
chr7:20395474-20395539
Length
84 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CTGGAGTCTCTTCCCTGCAGAGA
3' ss Score
7.46
Exon sequences
Seq C1 exon
GAGAGGCGGGAAGGCGCCGGAGGTTTGAAAGCTGCGGGTGCTGCCGCTGCTAGCAGCTGCGCGCGGGGGGCGGCCCGGCTCGAGCCACAGGAGCGCGGCGGGGCGCAACAGCACCGCGGGGATCTCTGCCGGTAGTATCCCTCACGCCGCGCGGAGCCTTGGGCCAGGATAGCCGCCGCTGCGGCGGCAAAGGAAACCGAGCTACCGCCGTCACTGGTTGGTGACGGAGGCAACGTAAAGGAAAAGGTTAACGACAACTCACGGGGGATAAAAGCAACCCTGAAGCTCTCCCGTTAACGTTGGGTACAGCTGCTGAGGTCGGCTTGCGTCTCGGCACGGTATTCGTTTATACGTTGTGGCATCATGTCTGCTGTAAAGACAGAAGATGAAATAACCGTCGTTGAGAGGGAAATGAAAGAATTTTGGACTGAATTAAAAAGCGTTTATGGCACTGAACAGATCAATCAGACTTTAGCACTGAGAGACTCGTGCAAGGAGTCCATAAACGTACTTTCAG
Seq A exon
GTAAGAGCGCCGTGCGTTCGTGGCGTCCCCGTGTTCTGCACGCTGCTCAGAGCTGGTCAGGTAACTGGAGTCTCTTCCCTGCAG
Seq C2 exon
AGAGATGGTCCAAGAAGCTGAAAGAAGGGGACCTGATGATTGATAAAATTCAGGAGTACAGGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010900:ENSGALT00000017724:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF083176=Spc7=PU(26.1=92.3)
A:
NA
C2:
PF083176=Spc7=FE(12.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAATAACCGTCGTTGAGAGG
R:
TCAGGTCCCCTTCTTTCAGCT
Band lengths:
167-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]