GgaINT0057964 @ galGal4
Intron Retention
Gene
ENSGALG00000005892 | SCUBE2
Description
signal peptide, CUB domain, EGF-like 2 [Source:HGNC Symbol;Acc:HGNC:30425]
Coordinates
chr5:8947079-8948538:+
Coord C1 exon
chr5:8947079-8947183
Coord A exon
chr5:8947184-8948382
Coord C2 exon
chr5:8948383-8948538
Length
1199 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
CTTTAATTTTGTTCATACAGAGA
3' ss Score
6.54
Exon sequences
Seq C1 exon
ATATTTCAACCATCAAGATAAGTGTAACCTTTAAATTAAATGAAGGAAAATGTAGTTTGAAAAAGACTGAGATGTTTCAAGAAGGTCTGGAACAGACGATACCAG
Seq A exon
GTATGAATATAAACATGCAGGTAAGCAGGTTGAAGTCGTATCTGTGGGGTTATTAAATGTCCTCCTTGATAGGAAGTGCACAGAGGGCTGCAGACTTTCTACTCCTTACTGACCTCATAAATCGTACTCCTTCCCAGCCAAGATTCTTGCAGCAGGTGCTTCAGGTGGCCAGATTTTCCTCTGATAACCTTAGAGTTTGCTAGGAAAGTCCTACTTTTTTGTTTGTGCCACTGTCAGTAAGTTCCCAGTAAAATCAGCCATACTTCTTGTTCTTTTGATTTTGTCCTTTCCCTCCTTTCTATCCTTTCTTTCTCTTCTTTCCTTTATTGCCTGCTGCTTCCTCTCTGATGCCTCAGTGAAGATGCTCTGCGCCTCTTATGCTGACTTTATTGCTAAAAGATTATTCCTCTTTTCTTTTCCTCTTATACTTTAGCAGCCCCGGATGGACACAGTGAGGTCAGCTCTTCGTCTGTTCCAAGACAGACTGTACAAAGTCAGCAGGAAATGAGAATACTTAGGGGGGAAAAAAAAAAGATAAAGTTTCTTGCTAATATGGTGAATCAGCATGTCAGTTTGTTTGTCCTTAGAAGAGCAACAGCAATGAACTATGCTAGGTACTCAGTGAAGAGTACATATTCCTGAACCAGAGCTTATTCTGAATGTTTTCTTTAACTAGATCTTGTTTCCCTCTTTGAGGGATTGAAAATGGTCTCCAAATGTCCCATGAATGCAGCCACCACTTAATTTAAACACCATTATAAGCTAATGCATTTTTCACATGCTTCGTGTGAGTGCAGAATCGTTTCCCTCCAGCAGCCTGCCTGGTGCAGGCAGAGTTACAGTTTTAAGATGTTTTGCATGGTAGGAAGGGAATGCATTGGAACCTGCTTAGCAAACCCCACGGGAAGCAGGCTGAGCGCTGCAGCCAAGCTCTAATCCTAGCAGTGAATCACGCGTGCCTCAAAGCCAGGGCAGCTCTAGGGGCTCCAGCTCAAAGTACATCCATAGGTGCACTGCAGTCATGATTCTGCAGGAGGGCACACCCAGTGAGAAACTGGACAAAATGTTTGTTTACTGGTGTTTGGAGTGAGTCATTTGCTCCCCTTGAAGTTTTGGTGATGAAATACGCACCGAAGACTAGCGAGTATCTAATAACATAGCTGGCCAAGCTTTTGCTTCCTTTAATTTTGTTCATACAG
Seq C2 exon
AGAGACATAACTCAGTAATGGAGAGCTTCCACTATGTAAACCTAACGTGCAGCTCCGGCAAGAAAGTCCATGGAGCCCTCAGTAGACTGCCTGCAACCAGAGAGATTTTTATCACTGCGGACTTTGAGCTTGAAACGAACCAGAAGGAGGTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005892:ENSGALT00000009480:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.000
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:
TCAACCATCAAGATAAGTGTAACCT
R:
TGTCACCTCCTTCTGGTTCGT
Band lengths:
255-1454
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]