DreINT0132553 @ 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
chr8:26539835-26542071:+
Coord C1 exon
chr8:26539835-26539951
Coord A exon
chr8:26539952-26541922
Coord C2 exon
chr8:26541923-26542071
Length
1971 bp
Sequences
Splice sites
5' ss Seq
ATGGTACAT
5' ss Score
4.52
3' ss Seq
CTATACATGTGTGTGTGCAGAGC
3' ss Score
6.83
Exon sequences
Seq C1 exon
GTGGAGAGCTGTACACTGGTCTGACTGCTGATTTTTTGGGGAGAGACTCTGTGATTTCAAGAGGTTTCGGGACCCGCTCACCCATGAGAACAGAAACAGATCAGAGAATACTCCATG
Seq A exon
GTACATAAATATTCATATAAATCCTTCTTCAGTCTTACACTGCATCTTGAAAGTATTCAGAGCGCTTCCCTTTTTACAGCCTTATTCCAAAATGGGTTAAATTTATTTATTTCTTCAAAATTCTAGACACAATACCCCATAATGACAATGTAAAAAATGATTTTTTAAATTGTTGCAAATTTATTCAAAATAAAAAACCTGAAAAATCGAGAGTATTCACAGCCTTTGCTCAATACTTTGTTGATGAAACTTTGGCAGCAATTACAGCCTCAAGTCTTTTTGAATATGATGCCACAAGCTTGGCACACCTGTCTTTGAGATTTTTTTGCCCATTCCTCTTTGCAGTACCTCTCAATCTCTATCAGGCTGGATGGGAAGCCACAGTCAACATTCATTTTCTTGTCGGCTTAGTCCCTTTATTAATCCGGGGTCGCCACAGTGGAATGAACCGCCAACTTTTCCAGCAGGTTTTTACGCAGCGGATGCAACCTATCTCTGGGAAACACACACACACACACACACACACACACACACACAACGGACAATTTAGCTTACCCAATCCACCTGTACCGCATGTCTTTGGACTGTGGGGGGAACCAGAGCACCCAGAGAAAACCCAGGCAAACACCGGGAGAACATGCAAACTCCACACAGAAACGCCAACTGAGCCGAGATTCGAACCGGCGACCCAGCGAACTTCTTGCTGTGAGGCGACAGCACTACCTACCTACTGCGCAACTGTACAGCCATTTTTAGATCTCTTCAGAGATGTTCAATAGGATTTAGGTCTGGGCTCTGGCTGGGCCACTCAATTATATTCACAGAGTTGCTGTGAGACCACTCCATTGATATTTTACTGGTGTGCTTTGGGTCATTGTCCTGCTGGAAGATGAACCGTATCCCCAGTCTGAAGTTAAGATCATTCTGAAGCAGATTTTATTCAGGATGTCTCTGTACATTGCTGCATTCATCTTTCCCTCTATCCTGAAAAACATTCCCACAGCATGATGCTGCCACCACCATGCTTCACTGTAGGGATGGTCTTAGCCTGGTGATGAGCCGTGCCTTGTTTTCTCCAAATGTAATGCCTGGCATTTACTCCATCAGACCAAAGAATTTTGTTTTCTTATGGTCTGAGAGTCCTTCAGATGCCTTTTGGCAAATTCCAGGCGGGCTGCTATGTGGCCTTTACTGAGGAGTGGCTTCCGTCTTGCCACTCTACCATACAGGCCTGATTGGTGGATTGCTGCACAGACGGTTATCCTTCGCTAAGGTTCTCTTCTCTCCACAGAAGAACGTTGGAGCTCAGACAGAGAGACCACCCGGTTATTGATCACCTCCCTGACTAAGGCCCTTCTCACTCCATCACGCAGCTTAGATAACCGGCCAGCTCTAGGAAGAGTCTTGGTGGTTCCAAACATCTTCCACTTACGAATGATGGAGGCCACTGGGCTCACTGGAACTTTCAGAGCAGCAGAAATTTTTCTGTAACCTTTTCCAGCCTTGTGCCTTGAGAAAATCCTGTCTCGGAGGTCAACAGACAATTCCTTTGTCTTCATGCTTGGTTTGTGCTTTGACATGCACTCTCAACCCTGGGACCTTATATAGACATGTATATGCCTTTTTAAATCATGTCTAATCAACTGAATTTAACAAAGGTGAATGCCAATTAAGCTGCTGAAACATTTCAAGAATGATCAGTGGAAACAGAATGTACCTGAGCTCAATTTAGAGCTTCTTGGCAAAGGCTGTGAATACTTATGTACATGTGATTTTTCAGGTTTTTTATTTTTAACAAATCATAAGGTAAAACGAATTGAATGGAATCAAAATGTGTTTAATAATTTTTACATTCCAATTGTTGTTTGACATTGTCCTTGTGTATCAATTTAATTGATTTCCATAGTCTATACTGCAAACTGTCAGATAAGCATTATAAAAGTTCATGTGTCTATACATGTGTGTGTGCAG
Seq C2 exon
AGCCCAGATTTGTTGCGGCGCACCTTATTCCTGACAGTGCAGACAGGGATGATGATAAAATTTATTTCTTCTTCACTGAGAGAGCAACAGAAACCGCAGAGCGAGACGATGATGGAGCCATACACACACGCATCGGGCGATTGTGTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000007560:ENSDART00000046863:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.200 A=NA C2=0.080
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(8.3=100)
A:
NA
C2:
PF0140314=Sema=FE(10.4=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:
GTGGAGAGCTGTACACTGGTC
R:
CGCACACAATCGCCCGAT
Band lengths:
266-2237
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]