GgaINT0107559 @ galGal3
Intron Retention
Gene
ENSGALG00000014178 | SCUBE1
Description
NA
Coordinates
chr1:70738934-70743181:-
Coord C1 exon
chr1:70742984-70743181
Coord A exon
chr1:70739087-70742983
Coord C2 exon
chr1:70738934-70739086
Length
3897 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
ATTTATTTAATATTTCCTAGCTT
3' ss Score
5.35
Exon sequences
Seq C1 exon
ACCAGCACTGTGGAGGAGAACTTGGTGATTATACTGGCTATATCGAATCACCCAACTATCCTGGAGACTACCCAGCTAACGTTGAATGCATTTGGAATATAAATCCACCCCCAAAGAGGAGAATACTCATTGTTGTGCCTGAGATATTTCTCCCAATAGAAGATGAATGTGGTGATGTTTTAGTAATGAGAAAAAGTG
Seq A exon
GTAAGTTGTCAGACATGGGTTATATAAATATTTATTACAAACATTCTGAGTGGAAAGTTCATACTGAAGGGATGATTGTCCTCAGCTTTCAATGTTTTTAAAAGGACTGTTGAATGAACTGGCACAGCAAGTTAAAACAGAACACTGTACCAATAACAATTAACATATTAATTATTCAAGAGTCTTGGCTGAATCACAAAGCAGTTAATGGTCTTTTGTCTAGCCCAATTATCATGTGGGATAAATCACTGCCATTCTAGAGGTCAATGCAGTAATGCTAAGTTAGATTATGAGAGATATCTCCTGACATTTACACAAATTATTCTCTTACTTATCCTTTGTGAGTAAATGCTGCAATTATTGCTAAATCTTTGCTGTGGCACAGGGTAGGTACACCTGACACCTTCAAGAAATCCAAGTTTTCCCAACTTTATGTGGAGTGGGTATTGTATTCTTTCTTTGATTACTCCTGAAGCTAAGACACCATTATGATACACTTCTCATGAAGTCCTTTATAGGCATCCAGCTCCTACTGATCTGTTGTTAAATTTCCAAGAAGCACCAAACATGAAAGGCAATTGCTGATGTGGAGCTTTCCTTAAAACAGTGTATTTTACTTGATAAAATGGCATATTTCACTTGCTAAAACAATTTTTGTGACTTTTTTTTTTTTTATCCTTGAGGACTTGTGTTGGCAGCTCTATATATCAGATGAGTACTAGAAGAAACCTGTTCACTACAGATGAAATGAAAATATTTCTGTATAGATTTGTTTTTTAAAAGCAAAACAATGTAGCAGAACAAATTAGTTGTCCTAATCCCAAACTGCTGTGGTTCCAGCAGTAACTAAAGCCAGGCAGATCAGAGAAATATTTGGCTTTCAGTTGAGAACCAACAGTAGTACCACAATATCAGCACTGAAAAATGAGGGAAGTTTTTCAGATACATGATTTGCAATTGCTATATGTTTGGCATCATATAAGTAGTTCTTAAAAATATTTATTATGTTTTATGAAGAGTCAGCTTCTAATGCTACAGTGGAAAAACTTATCGCAGTTCCAGAGTTACTGTTCGATCCCCTTACTTGTAGTTTAAAAAGGGACTCAACCACAATAGTATGTATGAATAATACAGCATGTTCTCACCAGCGTGGTTATGTTAAGCTAGGCTTCTCCCTGATACACACTTAGGCACACACAGGCAGATGTGGGCTGAGACAAGCTCCAGCTGTGTGGTAGTGTTTGCACAGAGCAGGTAAAAGCCATGCTCACAGTCCTCCAGTGGTTGTCGTGAGTTTCTAGTTGCTGAGCATGCTCTGAATGTGTTCAGCCCAAGTTACATGGACAACGTGAACAGAAAGTGAGCAGGGTTGTGAAATTAATTCAGTAATCTGATAGCCTTGCTTGTCACCTTAACTCTGCACAATTGTGTATGGCTCCCAAACTATCAGCTCTATTTCAGTATAGATAAATGGTATATTCTTTGCAAACCTGCAGCCAGGTGTTCTACATTGGTTGGGCCTGGTCCATTATGGTCCCAGTAAAAAAGCACTTAGTCTCTGTAAGATACCATTTTAAATGCTTTTTATTGGAGCTAACTCTGTAAGGAGAGAATAGTATAGATCTTTACATGGTAGGAGCCCTAAGTGGTGTAGTGTCAAATAGGCCTCTGATTCACACAGCATACTGGGCAAACCCTGTGCACAGAAGAGATTTTCCACTTTTCATCATTCAGCTATTATGGGATTTTCTTATGAGACCAAATGTAGTGCATCCCAGGGTCCTGAAGAATCTGGTTTATGTGATTGCCAAGCCACTCTCTGTCGTATTTGAAAAGTCATGGCTGTCAGGCAAAGTCCCTGCTAACTGGGAAAAGGGAAATATCACTTTGAAGGTTAACATCTTTTGTATGAAAGGAAGACATGAGGAACTACAGACCAGTGAGTCTCACCTCAGTACCTGGGAAGATCGTGGAGCAGATCCTCCTGGAAGAGATGTTAAGGCACATGCAAGATGGGGAAAGGATCTGAGACGGCCAGCATGGCTTCACCAAGGGCAAATCTGGTGACATTGCATGATGGAGTGACAGCATCAGTCACTCCTTCAAAGGAAGGGCAGCTGATGTCATCTGCCTGGATTTGCGCAAGGCCTCCGATGTGGTCCAACACCACATCCTTATCTCTAGATTGGAGAAATAGGGATTGAAGGGTGGTCTATTCAGTGGATAAATTGGTTGGATTGAACAGCCAGAGAGTTGTGGTAAATGGCCCTATGTCCTGGTGGAGGTTGGTCATAAGTGTTGTCCCCCAGGGATCTGTCTTCAGACTGGTGCTCTTCTACAACTTTATCAATGACATAGACAGTGGGATCAAGATCACTCTCAGCAAGTTTGTTTTTTATGACACCAAGCTGAGTAATGCAGTTGACACAACAGAAAGAAGGGATGCCATCCAGACGGACCTGTACAGGCTTGAAAAGTTGGCCCACATGAACCTAATGAGGTTCAACAAGGCCAAGTGCAAGGTGTTGCACTTAGGTCAGGGCAATACCAGGAGTGTGTACTGACTGGGAGAAGAATGCATTGAGAACAACCCTGCAAAGAAGGACTTGAGGGTCTTGGTGGACAAAAACTGGACATGAGCCAGCAGTGTGCACTTGTGGCACAGAAGGCCTACTGTATCCTGAACTGCATCAAAAGAGGGGTGGCCAGCAGAGCATGGGAGGTGATTGTCGCCCTCTACTCTGCACCTTGTAAGGCCTCATCTGGAGTACTGTGTCCACATCTGGGGCCTCCAGCACAAGAAAGATGTAGAGCTGTTAGGGTTCAGAATAGAGCCACAAAGATGCTCTAAGGGCTGGAGCACCTCTTCTCTGAAGAAAGGCTGTGAGAGGTGGGCTTGTTTAGCTTGTAGAGGAGAAGGCTCTATGGAAAACTCATTGCAGCCGTCCAGTACATAAGAGGAACTTATAAGCAGGAGAGGCACTGACTTTATACAGTCTGATAGTGATAGGACAAGGTAGAATGGCTTGAAAATCAGAGAAGGGAGATTTAGGCTAGATGTTAGGAAGAAATTCTTTACTCAGAGTGTGGTGAGGCACTGGAACAGGTTGCCCAGAGAAGCTGCGGATGAGCCATCCCTGGAGGCATTCAAGACCAGGCTGGATGGGGCCCTGGGCAGCCTGATCCAGTGGGTGGCAACCCCCTCCATGGCAAGGGGATTGGAACAAGATCTTCAAGGTCCCTTCCAACCTAAGCTATTTATCTTATGTTCTGTGATCCATGAAACAACTTATCATGTCTACTGTCAAACAAAAACAACATTCTTATGAGAACTTAGTGCTGCACTGTTAGATAAAGGCAAGGCCAGGCACGGGGTATGATCGTCTGTGCCAAGTGAGAACTGCCTGTAGGCTCCCCTTCTTCCTGTGCTCTGGCTGAGGTGTTCCTGTAGCACAGCACTGGTCTGGGCACACTCACATTAACTCTTCTTCAGAGGGTAACTGCTTATTGCTATCAGGTTAACTCCCCAAACTGGGAATTCTTGGAGCTGCTTATCACATCTACCTGGGGTGCAGCTGACTTGTTCTGGTCTAGCCAGGATCAGTAGTACACAGAGTGAGTAATATTGATACTAATTTTGTAAATGTTAGAAATGAACTTGTCTTGAGACAGCGGAGAAGGATTCTTATTACCTTTGTTGAAAAAATTCCATCTTTTCTTAGGCAGAGAAAAGAATACATGCCTTCTGTCACAAACAAAACAAAACAAAAACTTAAGCTTTCAGGCATATGTAAACTGAGAAGTGTTTTGTCAATTTGACATTTCTGACCTTGAAATTAGGAAGAGCACAGAAAGTTATTTTATCTTTATAAAATGTATTTATTTAATATTTCCTAG
Seq C2 exon
CTTCTCCTACTTCAATTACTACATATGAAACGTGTCAGACTTATGAGAGACCTATTGCATTTACTTCAAGATCAAGGAAGCTATGGATTCAGTTCAAGTCAAATGAAGGCAACAGTGGCAAAGGATTTCAAGTCCCTTATGTGACTTATGATG
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:
PF0043115=CUB=PU(57.3=94.0)
A:
NA
C2:
PF0043115=CUB=PD(41.8=88.5)
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]