GgaINT0107556 @ galGal3
Intron Retention
Gene
ENSGALG00000014178 | SCUBE1
Description
NA
Coordinates
chr1:70745612-70748429:-
Coord C1 exon
chr1:70748268-70748429
Coord A exon
chr1:70745780-70748267
Coord C2 exon
chr1:70745612-70745779
Length
2488 bp
Sequences
Splice sites
5' ss Seq
GAGGCAAGT
5' ss Score
3.32
3' ss Seq
ATGATCATTTACGTTTCTAGGGC
3' ss Score
9.2
Exon sequences
Seq C1 exon
TTACCTGCAGCACGGGCACCTTTTATAGCGGAGAACATAATCAGTGCATTCCTTGCTCACCAGGAACATACCAAGACACAGAAGGTCAACTTACCTGTGAGCCTTGCCCAAGTAATGATGGACAGGGAGTAGCGGGCGCCCGGAATGTGTCAGAATGTGGAG
Seq A exon
GCAAGTTTGATGTGATGGTAAAAGGATTAGATGTTGCCACACAGCCTGTGAGGTGTGGAGGCTAAAAGAGGGGAGAGCTATCCACACTTCTGTCTTGTAAAGGTAACAGAAGAAATCTCTGTGCTCTTACAAGCAATGTACAAAATGTTTTGGCTTGCTCCATTGATTGACATGCTGACATTGCCAACTGAAGATGGGACCTGCTGCAGCAAGGTTATGGTATGAAAATGAGTAAGCCAAGCAAAGCTTCTTACTTCACGTCAGGTATGGAATCCGAATAGACATACCTCGACTTGTAAGGACTCATCAGGTATATTGCAAGCCAAAGGGATAGTTTACTTTGGGCTGGTATTGGTGAGTGTAATGAACCTGCTGATTTAACCTTTTGCATGAGGTGCAGTTTACCTGGTTTCATCGGCAACAGTTGTAACTTTGAGATAGTTCTTCTGCAAGGGTCTGTATGTGGGCTCAGAAGTAACGACTGCAAGTGTCAATGCTGTATGAATTCACTGTAGCTTTGGGCAAGTGACATGGCATCTCTGACTCAACCACGTTATTATATAAATTAGATTACGATGGTAATCCCTGGTTTCCGAAGAGAACTGCAAAGTTCAGTTTGTAAATTTCTAAGTTGTTGAAGATATATCACTGTTAATTATTTTATCTACATTATTTCACTGCAGATTAGCAAAATCTAGTAGCTTTTTCTTTTTCTTAGAAAGAAATCTGTCCTATCTGCTTTCACAGTTCTGACTTTAAAACTTATCTATATAATTTACATTAATGCTTACTTAAAGGATATCTAGAGTGAGCACACAATGAATGACACTTGAGAAGTTGCCATTTTTTCTTCATTCAATGAATTTAAAAAAAGTCTAATGTCTCCAGTCAAACATATGGTAGATTTTGCAGATACCCTGTATGCAGGAACTATCATTGAAAAAAAACTTGAAATGCCCATACATCTTCATTATGCTGACTTTTGTTTGAACAAAATCCAACAAGAATAGATTATCAGAGTTTAAAAAATGTTGATATAGTATACTGACCAAAGTAGCACAACAATTAGTAGGAAAAGGTTTCTTAATTTCACCTTTGGCAACAGCTCACTTCTGTATATATCCTCAGGTAAGGACTGAGATATATTAATGCGGAAAGCAGCAAGCATTTAGCAGGATGAAAACACAATGGTACCTCTTCTTTGAAAGGATATCTGTAAGCCACATTTCACACATTCTTAATTTTCACATCCAGACCCACATCCATTCATTAACTACGTTCGTGTTAAAGTCCAGCAACCAGTTGGACCAGACCAGGAGGATCAGTTTTGCTATAAAAATAAGTGCAGAACTGTCTTCAAATTAGCAGTGCCATGTCTCTGATGTCTACATCACATCAACCAACTTGTACTGTCATATTCCAGCCAGGTGGGATGGGAGCAAGACTAAATCCCAGAGATTCTGATTCCAGTGGTGTCTATAAGAGTTAGACTTCTGTAGGAACTTTTGCCTGAACTTTGCTTTTGCTCAGGATTTCTTATCCATCCTGGGTGCCGATTACCCAAGATTCTGGACACCCCCAACATTTCCCAGTGTCAGGGTTTATAAAAAACCCCAACCCCACATGGAGCTCTCAAAAACCTGAAAAAAACTCTTCAGGTTTTCAAGCCATTTTTTTCTGTCTGCTGTTCAGTTCTCAGGGAAAATGAATTACAAAGCATTGCTATTAGGCAACATTAGGGAACTAGGTGTTCACACATCTCAACATGCTGATCTCCCGGCTGGAGTGGTATGAAGATATGTAGTAACGCCATAATCTTGAAAAACTTGACATCTTGATTCTCAGATATGTTGTCAAAGAGTAAAGTACACTAGCTAGCAAGAACCAAGCCAAACAAATGCCTATCAGAAATTGTCTGTGGTTTTGAAACCACCTTGTATCTGTCAGTAGGCTCATCAGCAAAGTGCTTTGCTTTTCACACATCACCACTTTCTGGCAGAAGAACGTCTGACAAGCAGTAGTTTTTGCAGCTGCCCAGGAAGCTGTTGGTGTCAGCTTTTCTTCCAGACAGGATGCCGGACTGGTCCCATCCAGATAGGTACTATTTCCATACCTACAGAATGGAGATATTAAAAAAAAAAGCAATGCTTCAGAGATATGATACAGAGATTCATTTTTTTCCCTGCAGAGTACTTTGAAATTCTCAGGTGAAGGACTCAGTGAAAGTATTATAAAAACATCTTGATAGACCCTGTCTAAAAAAGAAGATTTAAAAAGCAACATAGGTAGCAAGGAGCTTATTAAGAGACTAGTTCTAATTGCTGGTAGTTACAGGAATAATACAGATGCAAGTAAGATTAGAATTTGATCCGGAGCTGTCCTGTGGTTACTTTTTTAAGGTAAAAGAAACATGGCCAACTATGAGCTGTTTTTATATTCTGGCCAGAAAAGTAAGCTCACTAACACAGATGATCATTTACGTTTCTAG
Seq C2 exon
GGCAGTGTTCTCCTGGACACTATTCGTCAGATGGTTTTAAACCTTGTCGAGTCTGTCCTCTTGGTACGTATCAGCCTGAACCAGGAAGGACCCTCTGCTTTCCATGTGGTGGAGGGCTTGTGACCAAGTACGAAGGTGCTGTTTCTTTTCAAGACTGTGAAACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014178:ENSGALT00000022933:15
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:
PF076998=GCC2_GCC3=WD(100=84.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]