BtaINT0130747 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014920 | SEMA3E
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3E [Source:HGNC Symbol;Acc:HGNC:10727]
Coordinates
chr4:37384741-37386619:+
Coord C1 exon
chr4:37384741-37384782
Coord A exon
chr4:37384783-37386452
Coord C2 exon
chr4:37386453-37386619
Length
1670 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
CTCTTCCTTGATGTCTGTAGCAA
3' ss Score
6.13
Exon sequences
Seq C1 exon
GATCCAGTTCCTATTATTTCTATGGAGATTTCATCAAAGAGA
Seq A exon
GTAAGTTCTATAGGTGTCTCTGTGTGTGCATTCTATGTATCAGATAAGGTCAAAAGATAGAAAGCTTAGGTAGGTGTTCTTATATGTTAACAAGTTACAGCTTTATTCTGACAGAAATACATAATGATTTACAGGTAGATAATAGATTTCTTCATATTCTGTTTCTAGAAAAATAGACAAGAATAGATTTACCTGTACAACCATAATAGAACATTATTCCATGTTTTTTTTGCTAATATTTTTGCAAAAAATCATAGTAATGATACTACAAGAGAGTGTACAATGAAAAATAAACCTCCTTTCCACTTTACTGGAGCAAGTTTCTGGTGTAACTTTAAGAGTAGCTATTACATATATTGCCTCATTTATTTATAAGTAACCTTTTATGTTAAGGCAGATAAGGACATATGAGGTTATTGTTCTGTTACTTATACTTTTTATTTACTAACATATCTTACAGTTTATTCCACATCATTCCATGTATATATCTGTGTCACTTTTCTAAATGTTATATGTCAATGTGCACTGTTGGTGGGAATGTAAATTAGTGTAGCCACCATGAAAAGCAGTATGGAGGTTACTCAAAAAATTAAAAATAGAACTGCCATATGATCTAGCAGTTTTACTTCTGGGTATCTATCCTAAGGAAACAAAAACACTAATTCAGAAAGATACATACACCCCCATGTTCATTTAAGGTTTATTTATAATAGCCAAGACATGGAGATGAACTAAGCATCCATCTATGAATGACTGGATAAATAAATTGTACACATACACATGTACACACACACACATACACAATGGAGTGTTAGTCAGCCATAAAAAAGAAGGAAATTCTGCCATTTTCAGTAACATGAAAGGATTTTGCAGGCATTATGCCAAGTGAAATATGTCCAAGAAAGACAAATACCATATAATATATCATTTATATGTGAACTGTTTAAAAACAACAACAAAACAGGCTCATAGATACAGAGAACAGATCTGTGGTTGCCAGAGGCAAGGGCTACATGAAATGAGTGTAGGTTATTAAAATGTATAAACTTTTAGTTATAAAATAGGTAAGTCCTGGTGATGTAATGTACAGCATGATGATTATAGTTAACAATACTGTTTTACGTATTTGAAAGCTTCTGAGAGTAGATCTTAAAAGTTTTCATCACAAAAAAATATTTATAGATGTGTAGTATGAGATAAGGGAGATTAACTAGAATGATTGTGACCATTTCACAATATATACAAGTACCAAATAATTATGTTGTACATCTAAGACTAATATAATGTTATATGTCAATTGTATCCATTAAAAATGCAAAAAAAATACCTTTTCACTCTCCTTTTGGACAGTCCTGTAGACTTTTTAAAAAGATCTACAATGTTAGATGACAAGAGTCTTTCTACTTTGATAATGAATGAAAGTATAGTCAACTTAAGACATTTGTCAGCCTCACTATAGCACTTTTGTCCTTCAGGCATACGAGTCTGTAAAAGTATTTCAGGTCTTGGAGAAAACCAAAGTGTTAGTGTTCCATCATCAGTCCTGAGTAACTGTAGTTATTTACATGAATATTCACAGAGATGATTACATAGGAACGTGAAAATGTAAGAACTCAGTGCGAATTCTGTCCATTTCTGCTAGTGGCCTCTCTCTTCCTTGATGTCTGTAG
Seq C2 exon
CAACAGCTCTATATTGGATCTGCTTCTGCTGTGGCCCAAGTCCGATTCCACCAGTGTGACATGTATGGAAGTGCTTGTGCAGACTGCTGCCTGGCTCGAGACCCTTACTGCGCCTGGGATGGCATCTCCTGCTCTCGGTATTACCCAACAGGCACACATGCAAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014920:ENSBTAT00000019866:12
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(2.9=100)
A:
NA
C2:
PF0143720=PSI=PU(66.7=67.9)
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]