DreINT0131107 @ danRer10
Intron Retention
Gene
ENSDARG00000060865 | scai
Description
suppressor of cancer cell invasion [Source:ZFIN;Acc:ZDB-GENE-060526-57]
Coordinates
chr5:31442493-31443935:+
Coord C1 exon
chr5:31442493-31442666
Coord A exon
chr5:31442667-31443834
Coord C2 exon
chr5:31443835-31443935
Length
1168 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAAG
5' ss Score
6.93
3' ss Seq
TTCCTTTGACTCTCTTCCAGATC
3' ss Score
10.45
Exon sequences
Seq C1 exon
ACCAGTCTCAGCGTGGGAGTCTGTTTACTCTCTTCCTTTACAACCCCCTCATGGGCTTCCTATCTGTCTGTGGACTGAGCAGCATGCGTTATGGATTGTGGGAAAAAGCCCAGGAACTCCTGCGGAAGGTTTTCCATGACATTGGCCAGATGATCACAAGTTCACGAGTTATAG
Seq A exon
GTAAAGCTTATGTACACCTTGTTTTTTTTGGTTTCGTTCTAGCTGTATTGATAACTTTACACTCAAAACATTTACTCTTATATAAAAAGTTTATGCATGCATTGTTGGCTTATTAGGATAATCAGCATAACAATTTTATTTTTTATCAGTACACTCCCTGACAAAAGTCTTGTCATCAATCCCTGTTGTAAAAGCAACAAATAATGACTTGACTTCTACTATCATTTGAAAAAATGTCAGAAAGTAGATTTTTCTGATGAATCATCTGTTGAACTGCATCCCAATCATCACAAATACTGCAGAAGACCCATTGGAGTCCACATGGACCCAAAATTCTCACAGAAATCAGTCAAGTTTGGTAAAGGAAAAATCATAGTTTTGGGTTACATTTAATTAGGGGGTGTGCAAGAGATCTGCAGAGGGGATGGCAACATCAACAGCCTGAGGCATCAAGAAATTTGTGCTGCCCATTACATTACAAATCACAGGAGAGGGCAAATTATTCAGCAGGATAGCACTCCTCATACTTTAACCTCCACATCAAAGTTCCTGAAAGCAAAGAAGGCGCTCCAGAACTGATCAGCCCAGTTACCAGACATGAACATCATTGAGCATGTCTGGGGTGAGATGGAGGAGGAGGCATTGAGGATGAATCCAAACAATCTTGTTGAACTCTGGGAGTCCTGCAAGAAGGCTTTCCTTGCCATTCTAGATGGCTCTATTAATAAGTTATCTGAGTCATTGTTGAGATGTATGGATGCAGTTTTGCAAGCTTATGGGAGTCAAACACAATATGATGCATGATCACATTTTATTTTGGTAAATCTAGTAATCTAGAGGCCTTTGCCTTTCACATAAGCCACTTCTGATACTAAATGATCAACTAGAAGTCAAGTTATTATTTGTCGTTCTAAAACTTGGATAGGCGACAAGATTTTGTCAGGTGGTGTAAAAAAGTTTTTCCCCTTACTAATTTCTTGTATTTTTTTTTCCTTTTTTCCACATAATTTAATGTTTTAGGACATTAAGCAACTTCAAATATTAATCAAACTTAACACAAGTAAACACGTTATGCAGTTTTTAAATGAAGGTTTTAAATGGTGTATGTGATACATTGGACCAAAGGACATATTTATATTTCATAACTTTTCCTTTGACTCTCTTCCAG
Seq C2 exon
ATCAGGCGTATCTGCAGTTTTATGGTGATGAGTTTCTGCGTCTGCTTATGATCCGCTTCGTGTTCTGCTCCTCCGCGCTCCGGTTACACAAGCTCTTCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060865:ENSDART00000139744:15
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:
PF120703=DUF3550=FE(11.7=100)
A:
NA
C2:
PF120703=DUF3550=FE(6.7=100)
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:
TCTCAGCGTGGGAGTCTGTTT
R:
CCGGAAGAGCTTGTGTAACCG
Band lengths:
270-1438
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]