GgaINT0107561 @ galGal4
Intron Retention
Gene
ENSGALG00000014178 | SCUBE1
Description
signal peptide, CUB domain, EGF-like 1 [Source:HGNC Symbol;Acc:HGNC:13441]
Coordinates
chr1:68715574-68716960:-
Coord C1 exon
chr1:68716881-68716960
Coord A exon
chr1:68715727-68716880
Coord C2 exon
chr1:68715574-68715726
Length
1154 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAA
5' ss Score
6.82
3' ss Seq
ATGTATGTTGTCTCCCACAGGAC
3' ss Score
12.25
Exon sequences
Seq C1 exon
AGGATTACCAACAGCTAATAGAAGATATTGTTCGAGATGGACGATTATATGCATCAGAAAATCATCAAGAAATTCTAAAG
Seq A exon
GTACAAAAATTCTTCTTTATCTGAGGCTAACCAAGGATTCCTTTTACTAAATGTTTTTCCAAGGTAGCTCTCATTACCTTCATAGGATTGTAATATTTAAACCTCCACTGTGATGCCAAATTAGATTCTCTCTTTTCAGAGCTTTATGCTGGTATTTGAAGTTAAAACAAAATCAGTAGCTCAGTTGGGCTAAGCACACATCTACATCCTTTGCTGAAGCAAGAACTAAATGAAACGTATGCTAACGTGATTGTATGTTATAAAAATGAATAACCTGTTGTTCAAAGAGTCTTCTTCAGCCTCAGTGTGGCATATGTTTAAATTAGTTTTTTAAACAATAAGTTAGAATTTCCTGTGCATTAAAAATCTATCTACCTAAACTACTGTCCTGCCTTAACAAGATATAACCGTAATGTAGCATTGTAGGCTGTTCATGAAAGGATTTTCATAAGGCAAGATAAATGGTTTTCAAAAGGAGAAAACTGTGGAGAAAGGCTGCTGTGTTGCCACATATAACACCTAATTAATTTAAACCTAAATATATATCTATGTAAAGTTGCTCAGAAAGCAAATTTTAACCTGCTAAATGTAAGGCTTAGAGCCAGCTCTCCTGGCTGTCTCTTTCTCAGCCCTGTGAGTATTCACTCACTGGATCTTTGAGGTCACTCAGGTTTCAGGCACAGGCTCAGCTGATTCCCTGAAATGAGGCTTTACCAAAATACAGGAGGGGGTCCTTAAAGAGCTCATTGTTGCTGAAGACCAGCCTTCTTTCTTTCTTGTGGAAGGAAGGTCCTGAGCAACAGCATTAAAGAGGCTGGAAGGGCCAACAGAGGCAGCTTGCCATGCTAATGCCTAACTTCTACAGCCAGTTTGTGGTTAACCCAACTGCTGCTCTCTCAATTCAGTATCTTCCAGGAACAGAAATTGCAAAGGAAAAAAAAAAGGGGGGGGTGGAGGGGGAACCTGAAAACACAGCAGACAAATTCATCAGTATAAAACCCCACACCAACACGGAGCAGTTTCCTTACGCTGCTTTACCCAGAACCAAGTTCTACAAAAAGAAAAAAGCTGATTGTTGTTCTATAATTATGACAGATGAGCATAAACTAAATCCCAACAGTACTTTTATATAATATGTATGTTGTCTCCCACAG
Seq C2 exon
GACAAGAAACTGATTAAAGCTCTTTTTGACGTACTGGCACATCCACAAAACTACTTCAAGTACACAGCACAAGAGTCAAAAGAGATGTTTCCAAGATCATTTATAAAGCTATTGCGATCAAAAGTTTCCAGATTTCTACGACCGTATAAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014178:ENSGALT00000022933:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 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:
AGGATTACCAACAGCTAATAGAAGA
R:
TTTATACGGTCGTAGAAATCTGGA
Band lengths:
230-1384
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]