GgaINT0057958 @ galGal4
Intron Retention
Gene
ENSGALG00000005892 | SCUBE2
Description
signal peptide, CUB domain, EGF-like 2 [Source:HGNC Symbol;Acc:HGNC:30425]
Coordinates
chr5:8939673-8940882:+
Coord C1 exon
chr5:8939673-8939789
Coord A exon
chr5:8939790-8940759
Coord C2 exon
chr5:8940760-8940882
Length
970 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
TTTGCTTGATTTTGTTACAGACA
3' ss Score
7.21
Exon sequences
Seq C1 exon
AAACATGTGCAGTTAATAATGGTGGCTGCGATCGTACGTGTAAAGATACATCGACCGGAGTTCACTGCAGCTGTCCTGTTGGATTCACACTCCAGTTTGATGGGAAGACATGCAAAG
Seq A exon
GTGGGTTTTGTACTCAAGGACATGTGTGTACTAACAGCTTGCCATAAGGTACTCATCTCCAAATGGAGGTAATCCAGCGTGTGGAGGAAGGCTGGTATTTGTAATGTGATCCTAGGAGGCACCGCAGCCAGGAGCGACGCACAGTCACCTTGTGAGAGCACCCCAGCGTATCACATGCAGAAATCCACACTGCTCTCCTCCTCACCAAGATGACCTCATTGTGGACCTGTGAGGTCCACAAAGAGCTCAGAGATGTAGGTTTGTAGGTACTTAGAGGCATACGGTCCCATTGTCTGCTATCCACATTCAACAGGGTATTACAGAAATCTGTAAGTAAATACTAGAGTGTAGTTCAGAGAAGCCTGAGTAGAATTATGCTGGTTCAAGCAGCTCTAAGGATAATTAGAGTACTGGCAAGGAGAAAAAGGGTGGTAATATATTGGAACATATTTTCCTATAATTAAATGTTAAGATTATAATTAAATGTTCTGCTAGGCAAAAAATGATGGAATCCCCATGCCCGAGTCAGTTAACATTAGCTAAAGGACTCATTTTAATGTTGGCATGGAAAGGACAAATCAGGAATTCCCTCGAGTCACATCTCTGCGGGGCTTAGGAGGAGGAAAATTAGGAGGAGAGAATTTTGAAAGGGCTAAAACCTGTTGGAGGGTATTTAAGTTGAGTGTTTCCAAACAAAGCTTGAGGAAGTGGTCTTATGTGCATATACGTACTGAAACGTAGCTGACAGAAAGAAGATGAATGAAAGCAGTGACACAGTCACGAGGCTGAATGGGCCAGGTCATTCTTAAGAGCTGGATCTAACTTCAAGATTTGTGACAGGTTTATTAGATTTTGTTTCTGGGCTTCTCCCCACCAACTGAACGTGACTGTTTTCTGGAGCTGACAGTGGAAGTATGTGGAATGTATTCTGCTTATTCATGGTTTTTCTGTTTGCTTGATTTTGTTACAG
Seq C2 exon
ACATTGATGAGTGCCAATCCAATAATGGAGGCTGTGATCATTTCTGTAAAAACACTGTTGGCAGTTTTGATTGCAGCTGCAGAAAAGGGTTTAAATTATTAACAGATGAGAAGTCTTGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005892:ENSGALT00000009480:8
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:
PF146701=FXa_inhibition=WD(100=90.0)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=85.7),PF0764510=EGF_CA=PU(0.1=0.0)
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:
ACATGTGCAGTTAATAATGGTGGC
R:
CTTGACAAGACTTCTCATCTGTTAA
Band lengths:
238-1208
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]