HsaINT0147209 @ hg19
Intron Retention
Gene
ENSG00000075213 | SEMA3A
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3A [Source:HGNC Symbol;Acc:10723]
Coordinates
chr7:83758439-83764267:-
Coord C1 exon
chr7:83764110-83764267
Coord A exon
chr7:83758502-83764109
Coord C2 exon
chr7:83758439-83758501
Length
5608 bp
Sequences
Splice sites
5' ss Seq
AAGGTATCA
5' ss Score
7.22
3' ss Seq
TGTTTATTCTCTGTCCTTAGATT
3' ss Score
11.5
Exon sequences
Seq C1 exon
AAATGTTGGAATCCAACAATGTGATCACTTTCAATGGCTTGGCCAACAGCTCCAGTTATCATACCTTCCTTTTGGATGAGGAACGGAGTAGGCTGTATGTTGGAGCAAAGGATCACATATTTTCATTCGACCTGGTTAATATCAAGGATTTTCAAAAG
Seq A exon
GTATCAGTATTCTAATATATGCACTATAGTTATTTTGAAGCATCTCAAGTTATAGATAATTCTCTAGCTATTTAAAAGCATGATTACTGACAGAAAATTGTTTTGAATTAATAGTTTGTCTTTTCTGATGCAAATAAAAATGACAGTAATGAATCAATGGATGCAATAAATCAAAAAATATCAAGGATGAAACCACAGTATTTGCAGTAATCATTATAAGAAATATGAACTTCAGCTTACCCTTTCATATCTATTTTTCCTACATAAAAGTAAATACTTGAACCATCGTAGCAATACATCATAATTGACTTCATGAACTATTTATATGTGTGTAGGTATAAATTTATATTTCTCTGTATTTCCAGAAAATGAAGAGTTCATCTATCCATTACCCACATGCCTAATTTGGCATGCTATCAGTGTTTGTAAATAAAGTTTTATTGAAACACAAGCACTCCCATTCATTGACATATTGCCTATGTCTGTTTTTGTGCTACAACAGCAGAATTCAATAGTTACAAAGGGTATCAACTGGTCTACAAAAATGATTTACTATCTGGCCTTTTAAACAAAAAATTTGCCAAACCCTGATCTAGGAGATCAAAGTATCAGATTTTTAAAAATGTGGTCATGCAGACATCAGCAGGATATAAGTTCTATCTTTATTCTTTATAGTATTTCTGGCTCATTTCATTAATAAGCTATATTTTTGTTGTTGTTGTTGTTGTTTTTTGAGATGGAGTCTCGCTCTGTCGCCCAGGCTGGAGTGCAGTGGCGCGATCTTGGCTCACTGCAACTCTGCCTCCCAGGTTCACGCCATTCTCCTGTCTCAGCCTCCCGAGTAGCTGGGACTACAGGTGCCTGCCACCACGCCCGGCTAATTTTTTTTTTTTTTTTTTTTTTTTTTAGTAGAGACGAGGTTTCACCGTGTTAGCCAGGATGGTCTCGATCTCCTGATCAAGTGATCCGCCCGCCTTGGCCTCTCAAAGTGCTGGGATTACAGGTGTGAGCCACCGCGCCCGGCCTTTTATAAGCTATACAGTTTAACAGATATAAACATAGATTGACAAATTAGTGAAAATTGTGCTACTAAGTCTATATGTGTTGTGTCTAAGTGAACCATTTTATCACAGTCAGTATTTCTGATAATAATTATCTGAAGAATAAAGGTCTTTATGCAGTAGCTTTCATAAAGGTAATAGTAGAATTTCATTTTGGAATACATCCCTGTCTGTTTCTATTTGTATTAGTTTTACTTCTTAACATTGAGGGCTTTGAACTGGTATGCCCCAACTACTCACAACCAATAGCAGATTTGATGATAATTTTTAAGAAGTGACAGAATTTTTAAAAGCTTTTATTCTGGTTGGAGAGGGTTGCTTTTGGGATAAAATGCAGTTTTAAATTCAAAGCTGATTTACATTTTTAATAGAGTATAGCATAAACCTAAGACATTTTCTTTTCTTCCATTACCTGAACACTAAAAATCTGACCACAACATAAAGAAATTTGATTCATTATATATAGAGTCATATAAAATGGTAATACACTTATAATGTATTTTAGAATTGTGATATGCCAACTTTAAAAATCACTTCGGGTATTTCTATTTTGATTTTTCAATTCAATTGATTTCAAAGCCCCCTCAGATGATAGGAATAAATGCCTGTTATCTATTATCGAAAAATACTGGTTATTCATTTGTTTTTCTGAAATGATAAGTATTTATCTTAGTCTTTTGAAAATATCATAAAATTAGCAGATTTTTGTTGTTGTTTTACCAAAAGAAAACCATTCTTTATAAAATGAGCACAAAATAGGTCTGGTGCGGTGGCTCATGTCTGTAATCCCAGCATTTCAGGAGGCCAAGGCGGGTGGATCACCTGAGGTCAGGAGTTCAAGACCAGCCTGGCCAACATGGTGAAACCTGTCTCTACTAAAAATACAAAAATTAGCTGGGTGTGGTAATGAGTGCCTGTAATCCCAGCTACTTGGGAGGCTGAGGCAAGAGACTGGCTTGAACCTGGGAGGCAGAGGTTGCAGTGAGCTGAGATCATGCCATTGCACTCCAGCCTGGGTGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACACCAAGTCGATGAAGAAAAATTAGATATATTGATTTTAGGAAATTTTATCAGTTAAAATTGTAGGTATTTATAATAATTTATCATTTTGTGATATTCATATATGTATATATCTACAGATAGATAGCTTTATGAGCATAGAATACCTAAGATTATATATTTAATTTATTTAACATTTTTCTGTGAGTATATATTCTGAATGTGGTTAAACTATTCAATTATTTCTAAAACTGAAAATAATCAAATTATAAAATAAAAATCTTACAGCTAAGAAAATTCTACAGCCATTTGTACACTCAGAATATATCACAGTATCTTTTACCAAATATACTTAAAATGAACTATCTTAAAATAATGAATTACAAGGTAAATGATTTGTCCAAAATCGTGATCTTCTTGTTATAGCACTTGCCTTTGAGTTTAAAATCATTCTACTAATAATAAAGGGTATATTTCTAATTTTAAAAACATCCTATTACAAACAGATTATTTATTTTAATTATATCACATTGTTTATACAAATGAACCCAATTTACTTAAGAATTTATATCAGCTGGGTATGGTGGCTCACACCTGTAATCCCAGCAGGTTGGGAGGCCAAGCCCTGCAGATTGCTGGTGTCTAGGAGTTTGAGACCAGCCTGTGCAACATAGTGAAACCCTGTCGCTACAAAATAAATACATAAATAAATAAATAAAATACACAGATAAGCTGGGCATGGTGGCACATGCCTGTAGTCACAGCTAGCCTAAAGGCTGCGGCAGGACAATCATTGCCCTGGAGGTCAAGCCTGCAGTGAGCTGTGATCATACCACTGCATTCCAGCCTGGGCAATAGAGTGAGACCTTGTCGCAAAATAAATAAATAAATAAATAAATAAATAAATAAATAATTTGTTTATACATATATTTGGAGTGTTTTAATATTCCTTTTAACCTATGTATATGTAATGTTCAAATAGCTTTCTTCTAAGCGCCTATTGTGATGAACACTACAGGAGATTTATGGTTTGTTATTAATAATTCTTGATGACCTTACAAGGTTAACAGTAAAGATAAAATAGTAATCTTATGGGCAAATACTAGGCAAATCCCTCTTCGAGGCAAAAACACATGTTCAGGTTTGGAAGAACTGTGGAAAGATTCTTGGCTTTGATAAAAGGGTACAATCTCTTTAAAGCATAAATGCTTATTATATAACATGTGTAAGTGGGCCTGCCATGAGTGGAAGTGTAGAGGCATAAGGATGAAAAAGTACAAAATAGATTATGAAGCACTTTGAAAATGAGAATAAGAAATTTAGATAGTTAACTGAGAAATTTGTGAGCAAAGAATAAAAAGAGAATTCCAACCACCAACAGTTAAACAAATCCATCCAAAACATTAGTAATTACTCTTTATGGAAATGAATACTTAAAAGACTATTAAACATACATTTACTTTTGTTCCACTGGCTTATACTTACCCTCATTAAATTGCTCTCCAAAAGAACATTTCTACATCAAAATTTATTTTACTCATGTCAGATTTCTAAACTTTTATTTGCTATTATTATTATTATTAACCCTGGAACTCTGGAAACTTAAAAGGCCCTTTTAAGTCTAAGAATTTTTAGCATGAATATTATACAAATTATTGTTTATAAATATTTTACTTAGATAAAAGAATCACAGAGAATCATAAAATGAGGTCTATACTGTCTCAACAATTAAGCAACGAGAGCTAGGAAACTATGAGAAAACAACTTGTCTTTTTAAGTATATATATTTTTATATTGTAACTTTTGTTTTTAAACATATATATGTTTTAACAATCAGTGATTTCAGCACAATTTAGCTGGAAAGCTGAATATGAAAGTCAGTAAATCTTAACTGTTATATATTATTATTGTTATGCCCTAGAGAAAAGTTATGTTTTACCCTCTTCCATTATAAACTTTAAATAAAAATAGATCCCCTTGCCTTTCCATCTCCAATGTGAAGACTCAACTGCTGGGATTGCCCAGCAATCATTCTAGAAATTCAGTAGTCAGAGTAATGTTAATTATCAGAATGATACACTTACTGATCTTGAATTCTTGAATGTTTTTATGTGACTACTTTGTAAAAGCCTGTGGAACAACTCAACTATAATTTTAATTTACATATGCAGGCAAATGTGAAAAGGAAAGCACATAAGATAGAAAGAATACTCAAATTTAGAACTTAATGTTAAAAATGAATGCCTATCCAATAATTTTTAGGGTATATTGTTTTGACATGGACCTGAAATGCATTTATCAAGTCATCATACACTACTTCAATATGTGCCAAATCCTTGTTTGTAAATGTGTTTTGTTTTGCTTTGTAATTCTCCAGATTGAATATCATAGCCTTTGCCCAAGTTGATGATCATTTATACTGAATTATCTGGAGGTTCCCAAATGAATGACAATCAGTCATTTTAGGCTAAAAGCTTTCCAGCAGACATGAATGATTAAGTGCCATCATTTCTGTTTTTTTATATATGACTTTTTTCCCACTGAAATTAACTATTCATAATATTACTAGAAAGGAAAAATGAATAAAAAAACCCAAACTGTTCTGCCCCTATACAGATAGGAGTCATTGGAATTGCTCAGGGGATTTTATATTAAAATCAAATGAGAGTATTTGGATTAATATTGTTGGGGGGATGAATCCACTGTCCTCCAAGCCACCATTAACATCATAGTTCATCTACTACTGTCACTGTATTCACACAATATGGGACGTTTTGGAAGGATGAAGACTAAATATGAGGGATAAAAACACAAATAATTGTTTCTCAACTAGTCTTTTAGCCCACATTAGAGAGGGTGATTGTCTTTTAGAGCTATTTGTTTGTTTCTTCAGTCTACCTTTATTTCTCTAACATATACCATGCTACTTTTAAATATTTTCCCTTTCCAAAAAAAAAAAAAAGTCAAGAGGAGAAAAAAGAGAAGTTTCCATTCTAAGTATTTTTTTAATCCTTTCAGTTACTTATTCTAAAATGTCATGCTGAGATTTGTTTCAGGGAAATGTATCCAAAGCACCCAAATGTTAAAACTGCAAAATCACTATTTCATGATAAAGACTAATTTAGAAGAATCTGAGCCATATTCTATGCCAGTTTCTACTTCTCTTCACTAAATTCTCACGTTCTCTCAAGATCTCCCTCTCCCAATCTGTGTGCTAGTTCTTGCCATACTACACTGCTTAGATCTATTGTCTACACCAGTTTCTCTCTTGCTCAACTTTTATATATAGCAAAGGCTATTGGGTAGATGGAGAATCAATGACTTATGTTCACACCAATTAACTGGCGCCACTGGAAGGTCTAAAGTGAAAGTTTCCTGAAACAGTCTTTATGGAACTTTCTTTACTTCAGTTGCCCCAATGTCATCTAAAAGACTATATGGTGTTGGATCTCTTAGACAACTTAGTTGACATAAAACAATGTTTATTCTCTGTCCTTAG
Seq C2 exon
ATTGTGTGGCCAGTATCTTACACCAGAAGAGATGAATGCAAGTGGGCTGGAAAAGACATCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000075213-SEMA3A:NM_006080:2
Average complexity
IR-S
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=PU(35.5=62.3)
A:
NA
C2:
PF0140314=Sema=FE(21.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
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]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)