HsaINT0147458 @ hg19
Intron Retention
Gene
ENSG00000092421 | SEMA6A
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6A [Source:HGNC Symbol;Acc:10738]
Coordinates
chr5:115803279-115808789:-
Coord C1 exon
chr5:115808769-115808789
Coord A exon
chr5:115803444-115808768
Coord C2 exon
chr5:115803279-115803443
Length
5325 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGG
5' ss Score
9.33
3' ss Seq
TGTATTTGTGATGAAAACAGGGC
3' ss Score
3.61
Exon sequences
Seq C1 exon
ATTCCTTTGTGGCACTGAATG
Seq A exon
GTAAGGAAGATATTACTCTCATAATTCCATACTGGTGGAAACCTATCTGAGAATGTCTATTTCATTAATCCTCTTGAGTATGTTCAAATCTTAAGTTTCTTTTTAATTAATTTTTTATCCTCATCATTTTTTTATAGACATTTCAACTCCTCTACCAGATAATGAAATGTCTTACAACACAGTGTATGGTCAGTTTACGGATTTTTTTTTTTTTTTTAAATTCGTGAAGTCATTCATCCAGCAGTAGTTTATAGTTTTCATTCCTAAACATCATGGACCAGATTCTTTGTTACTTTAGGGCCCCAATTCACTAAAATTATTTATTAATTTCACCGTCCTTCAAAAATTACTCTGCCTATGTGAGACAATTGATGTGGGAGACTGAGTCCTAAATTTTTAATCCAGATAACATGAAATATGCCAACCTTAGGGAATTTGGTGAATACATTTAATGAGTTCTTGAGGGAGAAGAAATTGCTTTTGAACATAAGTATATCCAAGACAAAGGAATAATGCTCCTAACTGATAGACTATAGCTCCTCAGCTGATACAGTTCACCATCCCCCAAAATGCTGGCACTCAGGACAATACCCTCTGCTGGCGAAAATCTATACAGGATACACAGGTCAGGCTCTTATTAGACAAAACTTTCCAATATAGTATGAAATTGGCCACTGAAATTTAAGCTCAAAAAGAGTATGAATATTTAGATATGTTTTCAGTGCGATTTCTTCAGAATGTAGACAAGGAAGAGTGACGCAGTGGAAATGATGTGCAAACAGGATTTATCTCATTGTTCTTGGTCTGAAATACACAATCACTATATTAAACAAAGCTACTAAGCCCATAAACAGAATATTCTGAACTCTTTATATGAGAAGTTGAAATGGAGCTGTTCCATTTACATTTCTCAAGGTACCCCCAAATATTTATTAGGGTAAACTATCCATGTGTTTTTTTAAAGTATGATATGAAAAACATCCATGTGATGGCAAATTTAAGCCTCTGCATTATAATGCAAGCTGTGAGTTTCATGTATACACAGCCATTTTATAGTTTGTGTGTTTAAGATATATAATCAAGCAACAGATCCAGGACAGTCTTTAAGTACAGAAATAGGTAAATAAGGGAGGGAGAAAAATAAATTTTAAAAAAGGGAAAAGAAAAGAAACAAAGGGGAAGGAAAAGAAAGCAATGCAGGTTTATGATCCAAAGAAATAGTTCCTGATGGCTACAAATGTGTTTAATAGCTCTTTGTAAACTCTCACTCCCTGTGTCAAATTAGCATACATAAATAGCCTTTTTGAATATCTTAAAGACTGGCTTATACATTGGAGCTGTGTAGGTATGGAAAACAGTGCTTGGTTTCTCCTGACTGGCCTCCTTGTGAAGTAAGGCAGTGTGGAGTAGATAAGCCCACAGAATTCATCCAACTTTAATGTTCCCTCATCTATGATTGAAACCAGAATATTGAACACCAAAGACTAGAAGAAAAATTGCTCAGAAGGCAAATGTCACCTAGTTGAGACTGCCTTGAGGAAAAAACCGCACTTAGCATCTGCTTTTTTCCAATATGATACTTTGCGATCATTTCCTATAATTGAATAGTCTTCATCAGATTTTGAGAAATTAAGATCTTGAAACGAATTGAACCAGCAACCTCCCCAGCATTCATCAATCATACCAAGACCAATTTTAACTCCCAGGTAATTTCTTAAATAGACAGAATAATTAAACTATGAGATACTCTTATGAACAAAAATCACTACCTAAGCTATGTTCTCTCTTATTTCCTTTACAAAAGGAAAGGTACTTACTTATTAATGCTTCCGTGTTAACACTTTAAGGGATGATGCTCATTCATTTTCAGGTCTTGAGGCAACTAAAGAAGAGGTGGAATTTTTCTTTCAGCTAATGATCCTATCCATTTCAGGCTAAATCTATTCAGTGTGAAGCAGTTAGATGATTAATTGACCATCAAAATGAGAGCTGGTTCAGACAGTACTTACAAAAATATTGGCAACTTTTTAAAATAAACCATTGCAAGGGATGTTAATTTTGGAGTTAATAAACCCAGAATAGATTTCACTAATTCATTCGGCAAATACTTGTTGAGCAACTACTGTGTCCTAGGCACTGTACTGGGCACTGTATTTGTAGCATCGAAAGAAGAAACAAATTGCTAATTGTATGAGCATGGATATAGACAAGAAAGCCAATTCCAAAGTAAAAAGTGCATGCACACTGTTTCTAGCTGTATCCTCTGCATGTCCTGCACTCTGTGGCTGAGTGTAGGCTCATAGAGCCAACTACAAAACCAGAACTGCCCAACCCAGGAAAAGGGATCATTTCAATAAACGATGCAGAGTTTCTGCTTGTCAAAAGCTCTGTATCACACCAGTTACATATGCAAGAATCCCTTTTAGTGAATTGGGCCCTGATTATTTTCCTTCTCTCTTCCTCTCTTGTATTGATTTAGTGTCTCTGTTTTGTGTCTAATTGTCTACAAACATTGTTAATAGGTTAGAGTAGTATGAAGGGTATCTAACCTCTGGAATTACAATGACTTGTAGATATAGAGAAACAATATGATGCATTAACGTTAACTTTCAAAATATACCTATTTATTTGTATTTTATGAGAATGATAAAGCATAAGCTCCATTGATTAAAAGGTGACCTTTCTTATTGGACTGATAAGACAAAAATATAGATTCCAAATCTATTGACATATGATATCACATCCACAAATGTTTGCCTATTTTTGTAGCATTATTTTGGTTGCAAAGTCTCTTAGGGAATGCACAAAAATAATACAACCTTAAAAATCAGACTAGAAGATGGAATATAAGTGGTTTCCTTGTAATTTTTTTTTAAGCTTGGAGAGGTAATAACACATCTTTGAATTCAAACTGAGGACTGCTGCTTAATGGTGCTTTTACAGGGTGGTTCTAAAATTTTTGAGAGTCAGGTATTGCTTTCTCTGACTGTTTAATTCACCACTGGCACGTGTTTCCTATCCTCAAGCATAAGTTTAAAAGATTACAAACCTCATGCTGCTCAGTTTTTTCTTTCCAGTAAATCAGATGCATGGTTTCTCTAGATTTACATATAGAAAATCGAGATGTGGTGGGTATTAGACTAACACTTCAGTGATAGGAAGAAGAGACTGATTTCTCATATTTGTGTAAAACATTCTCTTACCTAACTACCATCTGGTCCACATTAATTTCCTCTCATAGCCATAGCTTTCCATTACCAATGAGTTTTCCATGTATTCACAGCATATGGGCCAGGAAATCTTTCTACAGAGAATGTGTCCCTTAGGCATATATTTCCCCTAGATTACCGTATTAAGAAATGTTCTCCCTAAACCATACTTATGGCATTACCATAAAATTGCCTCTTGAACACAGTTAAATTGAAAGTGCTCAAAATGCGTATCAATTCAGGTAAAAGAAATCTTGCTACTTGGAGGGGAGGTATTTTTTATTCTTCCCCACTTTCTCTTTCTAACTCCCTACAAAGCTATTTCTAATTATTTGCTTATGCTGGGCACTGAATTTTCTCTTAGGCTGACCATATATTTTATTAAAGTAGTCTTGAATTCAGGAGTGGAAAAAAAAAAGTTATGTTTTAGACCTCAATGTAAGCTGAAAGGAAATAAAGGAACTTCTATATTTCCATTTCTCAGGCTGATTTTCCTTCCCCTGTTCTCTTATCTGTATCATGACATGAGATGTGAACCTCAGAAATGTAAAAACAAAAAGTCTAGAATAAAGCATTCCTTGAATTTTAAATGAACATGCTTTTAGCAGCTGGATACGAAGCAGACTATTTTCAACAAATTGAATGTTTCCCACTTGTGTGAGAGCCAAACAAGTGCCATACAGAAAGGGACCTCTTCAATGTTACCAAAGCTTTGTGGCAGCATTTAAGTGTGGTGGCTCCATAGAAGTCACTATAGCATGGACGAGCCACTTGGCTTGCTTTTTCCTGCTAATCAAAGTTTTAAGAAGATAAAAAGCTATCTTTGTTATATATGTTTTGTCTAATTTGCAATATTACAGTCTCCTGGGGGGAAATCCAACTTCCAATAATAATTGTAAAAAAAAAAAAAGAATGCACTGTACTTATTCTTTTAATCTGTCTTTCTAGAGGCCAATATTTTATTTATCATGTGCATGGTGATCATACTTCAAGGCTGGAGCTTTTGGAGTTGTTGTGAGTCTGCCCTACTTTCCACCAAAGGCACCAATTATACATGCACAGTAGTTGCCCTTGTATCTTTTAAAAATTGTTCAAGAGGTTGTTCTGTGTAAGCCAATAACTCCACTTGAAAATCACGAGGAGGTCATATTTTATTTCTGCCAGAGAGAACAGGTATCATTGTGCCAGCTTGGATCAAAGCACCTGATACAATCTGTATTTAACCTTGTGGAATGATGGAGGGAGAGCTTACAAACGAATTCACAGGAAATGGCTAGAGTTTCTGCTGTAACTCTCAACCTAGCCATTCTTCTCATATTATCCTATGGTAGCTTATCTGAACCTCAGAAATCTATCCTTTTCTAATTTGAATCATTTTAGTCAACGCAGCCTCAGAAACGGAAACCATCTATTGAAATAATACACAAAAGGGACAGCCGTAATAGCGTGTAGCCGTTGAAGCCTCCATTCCAATGAAAAGACAGTGGGAATAGATCCCTTTGGAAACCACTAACTAATCCCAGAAAGAGGAATGCCTGTGAAGTTGAGTTGAACCTGAAGACTAGACACACTGTAGAACCTCCATAGGAAGGGTGCAGAGTAACTGAGTTACTTGTGATAGGGACAAGACTTACCCACTACCAGAAACCTGCCCCATCGGTCACAAATGGGATTCCCAGAGTGGACACTTTCTGTGTTTAGTGCTGCCATGGGAATATCAAAGAAGGACACTGGCCTTTCTTGAGCACCTATGTGTCAGACACTGTGCAAGATGCTTTCACCATTATGTCACTATCCTCCCAACACCGAGAGGTATCTTTATCCCCACTGGGTGCACAGGAAGAGGTTAAGTGATTCCCTGAGGCCCACCCAGCAAGTATGAGAGATAGGATCTGGCCCTTCATTTTCTAACTACAAGTTCAATGGGCTTTCTGCTGAACACACCCCACACCACCACCACCACCACCACCACCACCACCACTAAGCCGTGTCATTTCTAGGGCCATCTCCTCTCAGTCTTACAGCCAGCTTGGGTGTCCCACCTCCAGGCCTCTGCGCAAAGGGAATGTGGGTCTCTCTGGTGATGTTTTCCTAACTGTATTTGTGATGAAAACAG
Seq C2 exon
GGCATTCCAGTTCCCTCTTGCCCAGCACAACCACATCAGATTCGACGGCTCAAGAGGGGTATGAGTCTAGGGGAGGAATGCTGGACTGGAAGCATCTGCTTGACTCACCTGACAGCACAGACCCTTTGGGGGCAGTGTCTTCCCATAATCACCAAGACAAGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000092421-SEMA6A:NM_020796:17
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.390
Domain overlap (PFAM):
C1:
PF0143720=PSI=FE(10.6=100)
A:
NA
C2:
PF0143720=PSI=PD(4.5=5.4)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
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)