DreINT0020452 @ danRer10
Intron Retention
Gene
ENSDARG00000101452 | SUSD2
Description
sushi domain containing 2 [Source:HGNC Symbol;Acc:HGNC:30667]
Coordinates
chr5:15897296-15899043:+
Coord C1 exon
chr5:15897296-15897564
Coord A exon
chr5:15897565-15898833
Coord C2 exon
chr5:15898834-15899043
Length
1269 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
TGTCCTCTCAATCTTATCAGCTG
3' ss Score
8.17
Exon sequences
Seq C1 exon
TCCTGAATATGGAGCAGGTCAGCAGTGTTGTTACGACAGCACTGGAGCTCAGGTGCTCACGAGGGACTCTATTGGTGGCAGTACTCCTGATCGAGGGCATGACTGGGGGGATCCACCATACAAGAAACCCCCCAGAGTTCCTGGATTCTCCCACTGGAAGTACGATGTGATTAGCTTCTACTACTGCTGCCTGTGGTCACACAACTGTGAATACTACTTCACTCACCGGCCGTCCAGTGACTGCAGGACATATCAACCTCCTAGAGCAG
Seq A exon
GTAAAGAAAATGTTAGTTGTGTATTTGTCTTTTTTTTTTTTTCCTGATTTGTGGTTTGGTTTGGTTTGGTTTTCAATTTTTTGTTTTTTTGGTTGTGTTTTTATTTGTTTTGTTTTACTCCACTCAGCCATCCAGCAACTGCGTAACAGTTTTTTTTTTATCTGTTATCTATATATTTACATAATTTTTTTGTATTTTCTTCGTTTTTTTTTTTTTTTCATTTTAGTCAGGTTTATTTATTGTTATTTTATTTTTATTTAAATTTATTTGAATTATTTCTATTTTCTTTAGTTTTTTTTTTCCTTTTAATAACATTGACTAATGTTTTTCATTTTTTATTTATTGTTTTCGTTTTGTATTGTTTGTTGTCTTTTTTTTTAAATTTAACTTACATTTATTTTGTTTTCTTATTTTATTTTTTGCTGTTCTCATTTTATTTTTATTTTTTAATTTTATTTTACTAATTTTTATTTTATTCCTTTATTTATTTTATCATATTTTTATTATGTTCATATATTTAGTTCTATTTTTATTGTATTTTAATTTAAATTTAGTTTTTGTATTTATTTATTTATTTATTACTAATATCTGTTTTATTTTCATTATTTTATATATTTATTACTTTGTTTATTTTTGTTATCTTTTATTTTTGTCTTCATTTATTTTTACAAATATTTTATTAGTAATTTTTTGAATTTTCTTTTGTTTTAGTTTTCTTTTTAATTTTATTTTACTAATTTGTATTTTTAATTATTTATTTTATCATAAGTATTATTATGTTCATATTTTTAGTTCTATTTTTATTTTAAAATTTTTTGTATTTATTTATTTATTATTATTGTTTGTTTTATTTTTTGCATTATTCTATATATTTATTATTCTGTTTAGTATTTTGTTATTTTTCATTTTTCTCTTCATTTATTTTTAAAAATATTTTTTTGTATTTTCTTTTCTTCTAGATTTTTTGTTGTCTCTTTAATTTAATTTTACTAATTAGTATTTTTTTCATTTATTTAGTTTAGCATTATTTTTTAATATTTATATATTTATTTCTGTTTTAATATTTAAAGTATGAAAAAAGGCAGCAACACCAAAGCTCCAAAAATCTGAATTTATTAACTTAAAAAGGCTATCTTAAAGCGTGACGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATCCTTGTCCTCTCAATCTTATCAG
Seq C2 exon
CTGCTGTCCTTGGTGACCCACACTTCATCACATTTGATGGTGTTACTTTCACCTTCAATGGAAAAGGTGAATACACTCTGGTTCACTCTCCAGCTTTTCAGCTGTCAGTGCAAGGCAGGACTGAACCAATGAGATTTGAGAATGGTGAGTTTCAAATGGTGAGGGACATTTTAAAAAAAATAGACCGAATCAGACTTATTACAGTCAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101452:ENSDART00000168643:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.198 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0378212=AMOP=PD(52.1=83.5),PF0009420=VWD=PU(0.1=0.0)
A:
NA
C2:
PF0009420=VWD=WD(100=75.7)
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:
GTTACGACAGCACTGGAGCTC
R:
GCCTTGCACTGACAGCTGAAA
Band lengths:
356-1625
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]