DreINT0132556 @ 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
chr8:26545503-26546412:+
Coord C1 exon
chr8:26545503-26545572
Coord A exon
chr8:26545573-26546035
Coord C2 exon
chr8:26546036-26546412
Length
463 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGT
5' ss Score
6.84
3' ss Seq
TCAATATTTTCTCTCTCCAGTAA
3' ss Score
8.7
Exon sequences
Seq C1 exon
AGGATGTGTTTCTATTAAGAACAAAAGATGAAACCAATCCAGAGATCTACGCAATATTCAGCACAATCAG
Seq A exon
GTCTGTAGCAGAACTAGACTGAAAAATGTTTGTCTGTGTATTTCATCTGTACAGCTCTGTACTTTACTTTAGAATTGACTTAATTCTGTCTTTGTAAAACATTTTTTATTTTGGTAACATTTAGAATAATCTTTTATTTATCTTCACATTTACTTTTTCCTGTTTGAATCCATTCATTTTTTTTGTTTTCCTTATACATGCCATTTTCTTTTCCTATTAGTGTAAGTTATAAGTTAAAATATATATAATATATATATTATATTATAATAACATATATGTAAAAAAACAAGTTTAGCAAGAAAATGCTATTGCAATAATAAATGTAATAATTAAAACTGAAGCAATTTTTTTTATAAAAACCTTTTAGAAAAAGAACATTTAATTAAACAACATTTTAAAGTAACAAAAAAAAAAAATCTAAATCAGGCAACAGTGAGTTTAACTCAATATTTTCTCTCTCCAG
Seq C2 exon
TAATGTGTTTCAGGGCTATGCAGTGTGTGTATACAGCATGGCTGACATCCGTGAAGCGTTTAATGGGCCATTTGCTCATAAAGAAGGACCTGACTATCAGTGGGGCCCCTATGAAGGCAGAGTCCCATATCCACGACCAGGAGTGTGTCCCAGTAAGATCACCGCTCAACCGGGCCGTGCCTTCCGGAGCACACTGGAGTTTCCAGACACCGTTCTACAATTTGCACGAACGCACCCTCTAATGTGGCGCCCTGTTTACCCCTCACATCGCCAACCACTGCTGCTCCGCACCGGCGCCCCCTATAGGCTCACACACATCACTGTAGACCGAACACAGGCAGAGGACGGATACTACGATGTCATGTTTATTGGCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000007560:ENSDART00000046863:9
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(4.9=100)
A:
NA
C2:
PF0140314=Sema=FE(26.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCAATCCAGAGATCTACGCA
R:
TGTGTGTGAGCCTATAGGGGG
Band lengths:
355-818
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]