DreINT0132629 @ danRer10
Intron Retention
Gene
ENSDARG00000055373 | sema3fb
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3Fb [Source:ZFIN;Acc:ZDB-GENE-050513-2]
Coordinates
chr11:35195495-35198696:-
Coord C1 exon
chr11:35198655-35198696
Coord A exon
chr11:35195653-35198654
Coord C2 exon
chr11:35195495-35195652
Length
3002 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGA
5' ss Score
9.84
3' ss Seq
TTTTTAAATTCTTTTTGCAGCAA
3' ss Score
9.44
Exon sequences
Seq C1 exon
GTCCCTACTTCTATCACAACAATGAAGATTTCTTCAAAACGG
Seq A exon
GTAAGAATTTGCTGTCTAGATTACTCGCTATTGTTAATGTCTTTTAATATGAGTAAAACTGTCAAGAGAAAAACAATAAACCAATTTAAAGGGACCTTTTGTGACATGTCTCCAGGGTAACCATTTATTGTTGTGGTCTGTTTGTTGAATTTAAGTTACATTGCATCTACATGCCAACTAATTCTCATTAGATTTTAAGATTTTAGACTGTTAGGGTTAGTGTGTTGACGTTCTTGCAAAATTTCTTATAATCAGTTAAATTTTTCTAAGAAGTAGTATCAACAGATATTAAGCAGACAGTCTACTAATACTCAAGTTGACCATTAAAATAAAGTGTTACCATCTCTGATGTTCCTAGAGAGTTAAGTTTCAGATCAAAATACTTAACAAATAATGTTTTATAACTCTTTGAAACGACTCCTTTTAGGCTTTAATTCTTATTGTCATTTAGGCGACTGTCACTTTAAATTCAAATGAAATTGTGCTCCCAGCCCTCTTTTGAAAAGAGGGTGGAGCTAAAAATGCCTATGCATCAACAGAGCAGCAGATTCAAAAAGGCTGTTTCTCACTCAGGGCTGTTAATGCTAATGAAGGAGGGATCACTAATGGCCAGAGCTTTCCCCCTCGGATGACGCATGCAACGGGAGAATGTCAATCAAAGTGTTTCTGCAGACTTTTTATGAAGTGTGATTATAAAAATATTTAATTAATACATTTATACCATAAGAGGCTGGCTATGTTTACAGTTTGTTGCCACACAACTGTGTGTAAACGCCTTATAAAAGTAATATTTGCATAATGGGTCCCCTTTAAACTAGACCCGCAGCTGCTATCTGTCTAAGACTGAGCCCTGGCAGCTTTTATACGGGTTTACCAATTTCACAGATGCGTGGAGTTAAAATGTTAAACTTCATTTGTGTTTTATTCTTTCATCATAATCGGGATTGTTGGCAGATGTGGTATGACATCAGCGCTAGGCCGTAATTTAAACCCTGTTTCTGCCAGAATAACTGATTTGAAGCAGCTGATCCTAAAAGCAGAAATGTCAAGTGTCTAAACGCTTGAAGAAAAACACTCCATTATCAGGACAGGCTTAAATTTGCAGTTCAGAACCTGCACAGACCTGCCTGCTCCTGCAGCTCAGAGACAGTAAGGTTGCTGTCTTTCCAATAGGTTTTTACAGTAGACAATTTATCATTTTGGCTTTTATGATCAAACGTATGGAAGCATATCAGTTGCAATATTCCTTTTGAAATGTAAATTGGCAATGTGATATGTAAAATGGCAATGTATTCTGCATTTAAATGAGCATTTTTAAGACATGCATGCAAAGTTGTGCAAAATGAAAAACTTTTCATGTCATTAAAGTGGTAAGGAGATCAAAATTTACTTTATTTTTATACTGCACTTCATTCATTCATTCATTTTCCTTTTGGCTTAGTCTCTTTATTTATCAGCGGTCGCTACAGCGGAATAAACCACCATTTTATCCAGCATATGTTTTACACAGAAGATGCCCTTCCAGCTGCAACCAAGCACTGGAAAACACCCATAAACTCTCGCATTCACACACATACACTAAGGTCAATTTAGCTATTCAATTCATCTTTTCAATTCATCAACAGTAGGCATGTCTTTGAACTAGAGCCCTCGGAGGAAACCCACACGAACATGGGGAGAACATGCAAACTCCACTCAGAAACACCAGCTGATCCAGTTTTTGTTGTGAGGCTAACATATTATAACCTTCCATTCCCCTTGAAATGTCATTTTCTTTTCACTCTTGTGACATGGAATTCCTTTAGGGCGGGGTTATCTTGTCCTGTAGGGGGCGGGGCTATCAGGGTGTGTCTTGTTTCTGCTCTGCCTTCATCAATCTTTTTTTTAATTTTGTTAGCAACACCCATGTTCAAGTTTATGTACATCATTAAATTAATTTAAATTATTAAAAAATGTAATTATTATTTTTTCATGCATTCATATAGTTATTATTATTACAAATACATACATATTATATTTATATCCCTATATTCATTCCTTTTATTCATTTTCCTTCGGCTTAGTACCTTTACTCATTAGAGGTTGCTACAGCGGAATTGAACAGTGGAGTGGCTAACCACTGAGCCACAGCGTCGTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTATATATATATATATATATATATATATATATATATAATTAATCACAATACAATTTACACTGAAACAACATTAAATAAAACTACAATACCATACAAAAACAAATTGTATATAACACGTACAATACATGATGCCAAGTTCACAATTTATATTTATAGATAAATATATAAGAACAAAGAAATAATATACTACATGAACCAATCTGACAAAACATAAGAAATATATAAAATATTACATGATATATAAAGTTGCAAATTTAAAGTATATCATCTAATTTTAATTTTCCATTAAACTTTACATACATGGGCAACACGGTGGCCTCACAGCAAGAAGGACAATGGTTGGAAAGTCCCAGCTGGGCCAGTTGGCATTTCTGTATAAAGGTTGCATGTTCTCCCCGTGTTGCCATGGGTTTCCTCCAGGTGCTCCAGTTTCCCTGACAGTCCAAAGACATGCGCTATAGGTAAATTAAATAAACTAAATTGTCCGTAGTGTGTTTGTGTGAATGAGTGTGTATGGATGTTTCCCAGTACTGGGGTGCAGCTGGAAGGGCATCCACTGTGTAAAACATATGCTGGAATAGTTGGTGGTTCATTCAGCTGTGGAACCCCTGATAAATTAAGGTACTAAGCTGAAGTAAATCAAAATGAATGAATTTGCCTACATGTCTTGGAAAATACAAACTTAAATACAGAAAGGTACTGCAGTTTACTGCCATATTACATTTAAAAATGAATTTTGCTACTGAAACGGTACGCTTCCATACAGATGATGCTTCAGAATGCAAAGTAATGTTTAAATAACTTTTTAAATTCTTTTTGCAG
Seq C2 exon
CAACAACTGTATGTGGCCTCTGCGGTGGGAGTGACGCATATGGCTCTGCACCGCTGTGATGTCTACGGCGAGGCCTGTGCTGACTGCTGTTTGGCCCGGGACCCCTATTGTGCATGGGACGGCAAATCCTGCTCTAGATACTCAGCCTCGCAGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055373:ENSDART00000031441:15
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:
PF0140314=Sema=FE(2.8=100)
A:
NA
C2:
PF0143720=PSI=PU(64.8=66.0)
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]