DreINT0132545 @ danRer10
Intron Retention
Gene
ENSDARG00000007560 | sema3bl
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3bl [Source:ZFIN;Acc:ZDB-GENE-030131-2956]
Coordinates
chr8:26548172-26548699:+
Coord C1 exon
chr8:26548172-26548263
Coord A exon
chr8:26548264-26548657
Coord C2 exon
chr8:26548658-26548699
Length
394 bp
Sequences
Splice sites
5' ss Seq
AAGGTTCGT
5' ss Score
8.44
3' ss Seq
TCATGATGTTTTCACTGCAGGTG
3' ss Score
9.84
Exon sequences
Seq C1 exon
ATATTGGGACGGTGCTTAAGGTCATCGTACTTGGAAAAGGTAACTCTCTGGCCGGTGAGGAGATTACATTGGAGGAAATGCAGGTGTTCAAG
Seq A exon
GTTCGTGGGTGCACATGTCTGTGAGTTTTTAGTGTGTGTAATGAGATGTGCATTTATAGTCAAAGGTGCATCAAGTTACACATACAAAAGTACTTTATCTACACATTCTAGTATGGACATATCTACAACTATATAACATCTAGCTATAACTAACACTACCCACCTTTGTACACAACGACTGCATTTTAACTTTTGAAAACATGTTTCAAAGTCCAATTATTAAAAGTACAATTATTTTTAGCTTGTAATCTTCAAAAACACAATTTTGTGTAAATCGTGATGTCATGGGGATAATGTGATCATTTTGAAAGTATGAAATGGAATTTCGCAATCAGAACAGCAACAGCAGACTTCATGTTCAATAGTTCTGTTTCTCATGATGTTTTCACTGCAG
Seq C2 exon
GTGCCCACTCCTATAACCTCCATGGACATATCTGTGAAGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000007560:ENSDART00000046863:11
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:
PF0140314=Sema=FE(52.6=100)
A:
NA
C2:
PF0140314=Sema=FE(2.8=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:
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]