DreINT0132582 @ danRer10
Intron Retention
Gene
ENSDARG00000017369 | sema3d
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3D [Source:ZFIN;Acc:ZDB-GENE-990715-2]
Coordinates
chr18:9242351-9246205:+
Coord C1 exon
chr18:9242351-9242511
Coord A exon
chr18:9242512-9246142
Coord C2 exon
chr18:9246143-9246205
Length
3631 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAC
5' ss Score
8.14
3' ss Seq
TGTGTGTTTTTTATTTGCAGTTG
3' ss Score
10.22
Exon sequences
Seq C1 exon
ATCTGATACATTCTCGAAGTGTAGTACCATTTACGGGTTCCAGCGAAGGGCAGCATTTTCAGACAGTGTTATTGGATGAGGAGAGAAGCCGATTACTGCTGGGAGCCAAAGACCACGTCTACCTACTGGACCCAGACAACATCAATAAACACCCCAAAAAG
Seq A exon
GTAAACACACACACACCTTAAAGGGCTCACACCTGCAGACATGTAGAATCGGATCTCTGTGTAAAGGACTTAACACTATGTGTGGTCCGAGACACAACCTAGCAGTTTTTTTCTTCCATAGAATAATTCAGAAAAACTTTTACTTACTTTCAGACTGGTTGTTTCATCTTGCAAAAGCAGCCATGTACAGTGTTTGCAATAGAGAATAACGGGCTTAAGTGTTGTCATGTTTAGGTGAAGCATGTTCTCTTGTCTCTTGATTCAAACAGTTACTTTGACATTAGTCATTGGTTTAAAACAGTTTAAACCAAGATGGATGGGTAGATAGATAGATAGATAGGTAGGTAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATTTATTGATTTTTTTGAAAACTTTTTTTTGTATGATCCTATAATAAAGATTTAATGAAAAAAAAAAAGTTAACAACACACTCAGGATGTTTCTAAATAGTTCTTCTCTGGTTTCTTTGTTCTTGACTCTTGATTTTATGTTGAAATATGTGTCTATCTTTTGCCAAACAGGTGCATGTTTATTGTGGGAGTAAATTTATTATCTCTTTTTCGCTTTAAAGCACTTGACTTGTCAGCTGGTAGTACTCCTGCACTTGGACATCTTAATCTGGGTTGAAGTGCAAATCAAAACTGTTTATAGCTTTTTAATCTCACAAAAATACCTGATAGTGTGGTTTAAGAGCCTCTGGATATGTTTAGCCTGCGAATACATTTGTGGTGTTTGAGTGTGTTTCTATTTGTTAATCTGCCCTAAGAATCTGCCTTTTTTTCCATCTAATACTTTCAATCCAATCCAAGTGATTTGAATGATATTCCCTCAGTCTCACCTCAGAGTTACTGACCTGACCCTTCACTATCACATCTGTCAATCACAGCGATCCCATGACAACACTACATCATCATCACCTTCACACAAAACAACCCCCCCAAAAACAACTCTTCCATCATGTAAAGACATCCAAAGAATAAAAGCGTATATTTATGAAATATTCTTAAACTAACCTGTATTACTAATTTAAATACATATGTATTTACTTCTACACGATTTTTACACTTTCATTTTGATGCAGTTAAAAAATAGCCAATACTTTTAAAATACACTATATAATCTAATGTGTAATCAAATATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATGACAAAAAAGTGTTGACAAATGGTGGAAAAGTACTGTATTTAAAAATGTTGTATGATCGCTAGGGCCACACGGGATCTGCACGCGCAGAATTCCGCAGATTTTTAGCTCATCAACTTTGACTTTTTACTTCAGTAAATATGTGTAAATTTATATTTATTCAGTTTTTTAATGAATTTTAGTAATATTATTGTCTAATATAAAAATGTTCATCTGATTTATGTACAATGCAGTTGTACATAATGTAATAATGTAATGTAAAGTAATATTTTCTGTCTTTTAGTAGATATATTATATGAGACTTGCTTTGTTTACCAAATAAAGTGAATCTATTTGGATCTGCATTTTAAACATTAAATAAAAGTTAAAAAGATATTATTTTTTATTTCATATATTAAGGTTTTCGTTATGATACTCCTAAAATAATTCTGCATAAATAATTCTATGTCCGCAGATGCTGTCTGGCCCCAATGATCGCTTATCTATCATTTTATCTATTAGAATAATTACCTTTTTAAATAAGTTCATTTAATTTAATATGTTTGTTGTCAGATTCAGAATAAATATGCTGTTTTGTTTGCATAAATATGTTACAGTAAATATTTATTAAACAGTACTTCACTCATATTTTCACATTTCATTGTTCAGATCCAAAAGTCTCATCTGAAATTTTCGAACCACTGTTATAAAATAACTTACCTAATTAACCTAGTTAAGTCTTTAAATGTCATTTTAAGCTGAATAGTAGTATATTAAAAAAAATATCTAGTAAAATATTCGGTACTGTCATCATGGCAAAGATTTTCATCAGGGGTCGCCACAGCAGAATGAACCACCAACTTATCCAGCATATGTTTTACACAGCAGATGCCCTTCTGCAACCCAGTACTGGGAAACACCCATACATTATTTAATTCACATACACTATGGCCAATTTAGTTTATTCAATCCATCTATAGCCACATGTCTTTGGACCGTGGGGGAAACCGAAGCACCCAGAGGACACCCACATGGGAAGAACATGTGAACTCCACACAGAAATGCCAACTGGTCCAGCCGAGACCCAAACCAACAACCTTCTTACTGTGAGGCAACAGTGCTAAACACTAAGCCACCGTGTCACCATATAGATTCAGAATAAATATCCATTCATTCATTCATTTTCTTTTCGGCTTAGTCCCTTTATTAATTCGAGGTTGCCACAGCGGAATGAACCGCCAACTTATCTAGCACATTTTTACGCAGCGGATGCCCTTCCAGCCACAACCAATCTTTGGGAAATCGTTATAAATATGTTACAGTAAATAATGATAATACAAATTTGACATTTTTCTATATATGAAGAGTTCAGATCTGAAATTTTTTTAAGTAAGCATTTTTCTCAGCCTCCTATATTTAGATTCGGTGAGTTCACTCTAAAAGCAATGAAAATAACTGATTAATCTCCATAAATTGTAAATTACTGAACCTAAAAACATGAGACTGCAGAAAAACTATAATTTTAGAAATTTGAGATAGCATTTAGATGCTTTTCCATCAGAACTTTACATATATACACACAAATATAAGTTTACGCAAGACATGCAAGTGTGTGTTGTAAACTCATCTGTTCATACTTTTTTTCCCCCCGATTTGTATAGGACACACTGAACGGTTTTAAGTTTGCGGTAGGTACGACAATCTTCAAAAGCGGCATCATGTAAAGTCGTCTCACGAGCGTGTGTAATCATGGATTTCATATTACATGTAGAGACGGCTCTTGGAGGTCAAGGTCAAAGGTCAACCCTGCGTATGCTAAGCGCTTAAGCCTTTTATAACACATGTTTGCAGAGACAGGACCAGCGGCCCCTTCATCACTCTTTATCTGAACATCGTCCTCCCTCTCATGTGTGTACAGTATTTCACGTGTACAGCTTTTCATCTCTTAAATACACAATGGATTACACTCTGTTTAAATTCCTGCTTTTGAGTCACGGCATGATCTCAGTCTAAATCGAAGTTTTGGTATGGTTTACATAGTCCGTTGGTTTAGCTTTCTGTTACAGTGTCAGGAGAGACGATTGTAAACACTTCTGCTGACTATAAAGTTATATAGAGGATAAAGGTTTTTGTTGCTCCTGCTTTTCATTGAATGTCTTGCTTTTGTGTGTTTTTTATTTGCAG
Seq C2 exon
TTGAGCTGGCCTGCTTCGAGAGACAGGGTGGAAATGTGTATACTGGCTGGTAAAAACCCTCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017369:ENSDART00000101192:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=NA C2=0.048
Domain overlap (PFAM):
C1:
PF0140314=Sema=PU(7.3=63.0)
A:
NA
C2:
PF0140314=Sema=FE(4.3=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:
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]