DreINT0131763 @ danRer10
Intron Retention
Gene
ENSDARG00000037362 | scube2
Description
signal peptide, CUB domain, EGF-like 2 [Source:ZFIN;Acc:ZDB-GENE-050302-80]
Coordinates
chr7:28305134-28309632:-
Coord C1 exon
chr7:28309462-28309632
Coord A exon
chr7:28305302-28309461
Coord C2 exon
chr7:28305134-28305301
Length
4160 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TAACATTTTTCTGATCCTAGGTC
3' ss Score
7.98
Exon sequences
Seq C1 exon
TCAAATGCAGCGTTGGCACATACTACGATGGAGAGCAGGGGAGGTGCTTTCTTTGCCCCCCTGGGACATACCAAGATGAAGAGGGGCAGGTGTCGTGTGACGTGTGCCCAGGACCCGAGGGCAGGGGAATCCCGAGAACCGCAGGAGCACGCAACATCTCAGAGTGTGCAG
Seq A exon
GTGAGACTTCACAAAGACGCATGTGATCGTGAATGAACAAGCCTGCAGCTTTTCTATTATCTGATTTCTTTTGAGTTTGGCGTCTGTCAGCATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATGAAGTCAGAATTATTAGCCCCCCTGCTTAATTCTTTTCCTAATTTCTATTTAACGGAGAGAAGATTTCTTCAACACATTTCTAAATATAATAGTTTTAATAACTCATTTCTAATAACTGATTTATTTTATCTTTGCCATGATGACAGTAAATAATATTTGACTAGATATATTTCAAGACACTTTTATACAGCTTAAAGTGACATTTAAAGGCTTTACTAGGTTAATTAGGTTAACTAGGCAGGTTAGGGTAATTAGGCAAGTTATTGTATAATGATAGTTTTGTTCTGTAGACAGTCAAAAAATATATAGCTTAAAGGGGCTAATAATTTTGACCTTAAAATGGTGTTTAAAAAATTTAAAACTGCTTTTATTCTAGTTGTTATCTAAAACAAAACAAATAAGACTTTCTCCAGAAAAAAAAAAAAATTATCAGACATACTGTGAAAATTTCCTTGCTCTGTTAAACATTGTTTGGGAAATACTTAAAATATATATATATATATATATATATATATATATATATATTGCTTTTAATCAGTATTATAGTTTACCTAAACTTATTAATCAGGCCATTAAAGATGTTGATTACTTATTCTTAGCTCAAATTGTGGTGATTGTATATAATCCAATTCAAAATTCATTTAAAAAAAGATTTTTCTTACTGCTCGTTTAAACTCTTTATTTAAAATGAGCTTAATCAACACAATTCTTGAGTTTTTTTGTGACAACTTAGGTGTTTTATGTTCCATTCAGTTAAATTTGTAAAAAATTAAGTTAGCTTAATACGACAGCATGAAGGAATTGCGGGGAGCTCATTTTTCACAGTGTTAAACAGCTTTTTAAGGGTCAAGAAAACATGTAGGCAAAATAAAACAAACACCTGTGGCTTCTAAAGGATACAAGTCTTATGAAGCAAAGAGATCAGTATTTGGAAGAAACTGAATATTATTCACAATATTATTACCTTTAATGCACAGCCTTAACTGGTCTTAGGGTGCACTCAAACTATGCTATCCAAACCATCACCAGGCACATTGCTGGTTCGTTTGACAAGCGTGAGTGCTCCAAATCAAGCCCAGGCGTGGTTCAGTTGGCTGGCCCTGGCCCAATTGAAAGAGGTGTGCTAAAGCACAGTTCAGTTGGACTTTAGTGTAGTACGCTTGTAGTGTGAGTGCAAAGCATGCCTGAGCCTGAAACTAAAGACGTGACATCACTAATAAGGAACTGTTTCATATGGATTTATTAATCATACTTACTGTTCAATGAACACAAACTGTCTTAGTTTATTAAAAACGCAAACCCCTCGCTGCATCTTCAGTAAACCTTCTAATACCTGCAGCTTGAGGACTTTTATGATAATTAATGAGTGTCAAAAGTTGTGGATCTGTTCTGCAAAATATTTGACTGGGTGTTACAAAGCAATGTCAACTGTGCTAAGTGAGAGTGTTTCTCTTCTTGTTAAACTGAACAGTCGCATCATCGATTACGTAAGCTTGTTCCAGGTTGGAAGGTCAAGATGCAGTGTGAGTCCAGGCCGTCGGGGGATAGGGGAGGGGGGACAATCGTGCTTCGGCAAGGTTCAGAGGCAACTGTACTGAGTGTGAGTACACCCTTGAAAGGACAGTTCACCTAAATTGAAACTTCAGTCATCTTTTACTCATCCTCCACCTGTCTAAATTTCTATCTTCCATTGAACACAATAAGAGATATACTGAATAATGGTGGAGGAAAGAACAGCCATTGACTTCCATTGTATTTTTGGTTCCTTCCAGCTATGGCTGTCAATGGCTGCTATTTTTACCAGCGTTCTTCAGAATATTGCTTGTTGCATTCAGCAGAAGAAAAAAAATGAATGAAAGTTTAGAACCACCTAAGTAAATGGTGAGGAAATTTTCATTTTATATGAACTATTTCTTTAATAGTGCTGTCATAGCCAAAGCCATATCACCCTGCAGTCCAAGAGCAGTTACTCACTGAAGCCAAGCAGGGCTGAGCCTGCTCAGTACCTGAATGGGAGACCACATGAAAAAACTAGGTTGCTGTTGCAAGTGGTGTTAGTGAGGCCAGCAGGGGGTGCTCAACCTGATGTCTTTCGGATGAGACGTTAAAGCAAGATCCTGACTTTCTGTGGTCATTAATAATCCCATTGTACATAAAGTGCCAAAAAATAGGGGTGTAACCTCAGTGTCCTGTCCAAATTTCCTCCATCAGCTCTTACCTATCATGGCCCCCCAATTATCCCCATCCACAGAATTGGCTTTATCACTGACTTTCCATTGCACCAATAGCTAGTGTGTGGTGAGCGCACTGGCGCTGTTGTCCTGTGGCATTGTCCTGTGGCATTGTCCTGTGTTTTCCAAGTGGATGCTGCACACTGGTGGGGGTGTGGAGAGACCCTTCTCAATATTGTGAAGCACTTTGGGTGTATGGCCATACACAATAAATGCGCTATATAAATACACATTACATTACATTACATTATTACAGTCTGCATTGTAAGTGCAGTGGTGTTAACTGATGTATATTGAACATTGGGCAAATTCCATAGACTGCAGCATGGAAGCTGAGCACAGAGCTGGTCATAATTGTAAATTTATTTGGAAATTGAGATTTCTACATCATCTGAAAGCTTAATTATGCTTTTTTTCACATATGTAAAGAAAAGTCTGTTTGTTGAGGTCCATTAAATAACTCGAACAGATCCACTTTTTAATTTTAATGTTGTATTAGTGCGCGTTGAAAAAAACTAAGAAATAATAAATGCTTTAAAGGTGTTTTCCATTATTAGTTCATGTTAACTTGAGTTATGCTAACAAATGTAACCTGAATGTTGTATTGCTGACATTTTCTTATTTAAAGAAAAAAATTTACATGTATTGTTATAAAAAGTATTACAGACAAAATGTTTATACTGGATTTTTTAAATATATCTTTTAAATATGTATTATAATATTGTAATATCACTACCTACATCACAAAACCTATATCAATATATATATATATATATATATATATATATATATATATATTTATATATATATATACACGTACAAAAACAGTATTATATATTTTTTTCATTATAAATTTATTTTTTGTACGTGTATATATATACACGTACAAAAACAATATTATATATATTTTTAATATCATTATAAATTTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATGTACAAAAACAATATTATATATATTTTTAATATCATTATACATTTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATGAATTTATAATGATATTAAAAATATGTATATACTATTGTTTTTGTTTTTAAAAGACATACCACTTTTCATTTTATCAATTTATCTTTAGAGATGTCCTCCTGCATTTTTACAAACATTGTGAGGCTGAAAAAGGAGAGTATGATGAATCACATCCTGTTGTTTTGTTTATGCAGTTGGCAGGAAGCATACCTGCGCTGATAATAATCTGAGACTCATGGCTTGTTGAGCTCGAGTTGAGTTTTGGAGTGTGTTGGGAGGGGTCGTTTCACGCAGTCCTGCAAATCCTCAAATGTCTGATTCATTCACACCAACAAAGAATCCCAGATTAGTCTTGTGTTTAAAGAAAAAAAGGGCACCTCTATGCTTCTGTTTCTCAAACACAGTCATCACAGGCAGCTTACGGCACAGATGTCATCTTCTGCTTTTTTGCTGATAGACACAACAGAAAAGGCTATTAGGGACTGTCTCAGTGGCAGCCAATTCATTGTGTTCACCGGAGGCCTGCGCTTTCTTAGATAATGAACTTGCATGACCTCATTTGTGGTTTGCTTTCTTTGGAAGGCAATAAAAGGCTCAACTTGGTTTGTCTGGCATGCATTGTCTTAACATTTTTCTGATCCTAG
Seq C2 exon
GTCAGTGTCGTCCCGGTCAGTTCTCCCATGATGGTTTTGTGCCCTGTCTGCCCTGCCCACAAGGCACCTACCAGCCTGAGGTCGGCCGCACATCCTGTTTCACATGCGGAGGAAGCCTCACAACCAAATATGATGGTTCGGTGTCTTTCCAGAACTGTGAGACTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000037362:ENSDART00000054366:17
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=87.9),PF075629=NCD3G=PU(12.8=10.3)
A:
NA
C2:
PF075629=NCD3G=PD(85.1=70.2),PF076998=GCC2_GCC3=WD(100=84.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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]