GgaINT0107558 @ galGal4
Intron Retention
Gene
ENSGALG00000014178 | SCUBE1
Description
signal peptide, CUB domain, EGF-like 1 [Source:HGNC Symbol;Acc:HGNC:13441]
Coordinates
chr1:68722058-68723801:-
Coord C1 exon
chr1:68723640-68723801
Coord A exon
chr1:68722256-68723639
Coord C2 exon
chr1:68722058-68722255
Length
1384 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
TAATTTATGTTCCTGCATAGACC
3' ss Score
7.08
Exon sequences
Seq C1 exon
TTCATTGCTCTCCTGGACACTACTACAACTCCACAACGCACAGATGTATCCGATGCCCTGTAGGAACTTACCAGCCTGAGTTTGGTCAAAACTACTGCATCACCTGCCCTGGGAACACAAGTACGGATTTCGATGGCTCCACTAATGTTACGCACTGTAAAA
Seq A exon
GTAAGTTGCATTTATATTAGCTGTGAGGTGAAGCATGTCTTTGGTTCTGAACCGCAGCTTGAAGGTTCATTTGTCAGGTTGCACTCTTGTCATGTATTTCCCAGTTAGCATATATCTGTTGCCACATGGCACAGTAAAAACTGAAAGCAATGAGAACAAAACCTGGAAAACTATCACTTGATGCATTTAATTGTTTTAGCATTGAAGTAATTTCATAGAGTGCCAGCTACAAGTTAAAACTACTGTGCTTTCAAATTCCCAGATCCTGGAAGTTTTGCAGTGATGCATATTTCTGTCTGTGTAGAGCACAATATCAGAATAACTGTTACTAGTCGTTATAAAATACTAGGAGATACGGTCATGCATACTGCAAATGCTGGACAATTGCTTATGACTGTGAGATCTTCTCATAGGCTTTTTTGCAGTACTCTGCCTTCTGTCTTAAATTACCATTTTAAACGTCTCCAAGGATTCCTGTGTAGTTGGATTTGATCTTTTGTGAATTCCTATTTCTTTTAGACAATAGATTTTTTTCGTCCCTACCATGCAAATTTAAGAGAAGTTGTCTATAATAGTTAGGTAATGTCACGTTGAATATTCATGTGTACAGCTGCCATAAGTTTTTATTCCTATTAACTCATCATTTCTAATGTAATCTGAGTATATTAGTTATCCTTAAAGAATTTGAAGAAGTTTGATAATTTTCCAATAGAGTAAGACCACTTATGTCACTTTGCTGGCTTAGATATCTTCTGTTTTCAGTCCAGTTTCCGACCAGAATTTTTTGATTAAGCAAAATATTTAAATGTATATCTAGTTTTACACAGCTGCGTAGGCCTGGAAAGATCAAGTTAAATAACTTAATGAATCACATTTGTGGCAAACTCAATAGGAATTTTGAAAACTCAGAAAGTAAAACTTAAATGTATCAATTGAGATTCTTTAATAAGTTGTTTCATTTAAAACAAAGTAAATCTGTAATCAAGGTAAGGTTACCTATTAGGATCATCACACACATTCAGCTAAACCAGGTTAGAAAGTCAGAAAAGTTAGATGTCATCGTGGCCTCAGTGGTAACCACTGCGTGAGTGCCTCCACAATGGGATCCTGCTTACTTACCTGTTGGTTTCTTAATCAAGTATCAAAGCGGTCTGAATGGAGAGTCATCTTACACACTGGAGATTAAGGTCTTGCAAATCAGTTGCAATCAGCTCTGTAGGTTGACTATTGCTTTAAGGGCTTTCAGTGCTAAACAAAGAAGCAGCTGGAGAATATATCCATTTCTAAACCCATGAGAAGTTTAGGCTTGCTCTTGACAGATCTAGAAAAACAGCTCAAATTAGCTCATCAGCTAACACAAATGCTAATTTATGTTCCTGCATAG
Seq C2 exon
ACCAGCACTGTGGAGGAGAACTTGGTGATTATACTGGCTATATCGAATCACCCAACTATCCTGGAGACTACCCAGCTAACGTTGAATGCATTTGGAATATAAATCCACCCCCAAAGAGGAGAATACTCATTGTTGTGCCTGAGATATTTCTCCCAATAGAAGATGAATGTGGTGATGTTTTAGTAATGAGAAAAAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014178:ENSGALT00000022933:18
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:
PF076998=GCC2_GCC3=WD(100=87.3)
A:
NA
C2:
PF0043115=CUB=PU(57.3=94.0)
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:
TTCATTGCTCTCCTGGACACT
R:
AAAACATCACCACATTCATCTTCT
Band lengths:
343-1727
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]