HsaINT0147325 @ hg38
Intron Retention
Gene
ENSG00000196189 | SEMA4A
Description
semaphorin 4A [Source:HGNC Symbol;Acc:HGNC:10729]
Coordinates
chr1:156175556-156177744:+
Coord C1 exon
chr1:156175556-156175656
Coord A exon
chr1:156175657-156176404
Coord C2 exon
chr1:156176405-156177744
Length
748 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGT
5' ss Score
7.68
3' ss Seq
CTCCTTTCTTTCTCCTACAGTTA
3' ss Score
11.13
Exon sequences
Seq C1 exon
GAACTCCTGGAAGCAGGACATGGAGCGGGGGAACCCAGAGTGGGCATGTGCCAGTGGCCCCATGAGCAGGAGCCTTCGGCCTCAGAGCCGCCCGCAAATCA
Seq A exon
GTGAGTGTAGGACCACTCACCAGGGGAGGTGCAAAGGCTCTGGAAGACTTTTGGGCAGGGGTGGGCATTCCTGCTCCAATTTCCTCCCCCAGCACCTGCCTGGCTTGAGATCTGAACACCCGAGTTGGGATGGATTTGGGTCCTGGCTATAGGGAAGAGGCATAGGAATTCTGAGCTGGAGGCCAAGCTGGGATTCAGGATTGAGGTTGCAGTTGATTTTGGTGTCTGAGTTGGAGTTAGGTGGACTGGGGCTTAGTTTGGGGTCCAGACTGGAGATTAAGGAGGAGTGAAATTTGAGTTTGGGATTGAAATGGAAGTTGGAGATAAGAGTTAGGGTCCAGGCCAGGCTCAGTGGCTCACTCCTGTAATACCAGCACTTTGAGAGGCTGAGGCGGGACTCCCTTCTACCATTGTTTGAGCTCATGAGTTTCAGACCAGCCTGGCCAACATGGTAAAACCCCATCTCTACAAAAATTAACCAGGCGTGGAAACACATGCCTGTAGTCCCAGCTATTCGGGAGGCTGGGGTGGAAGGATGCCTTGAGCCCAGAAGGCAGAGGTTGCAGTGAGCTGAGGTTGCAGTGAGCTGAGGTTGTGCCACTGCACTCCAGCCTGGGCAATAGAGCCAGAACCTGCCTCAAAAAAAAAAAAAAAAGAGGGCTGGGGTCCAAAGATAGGTTAGAGACTCTCTCCTGTCTCCATCCTTCACTTCTCCCTTAACCCTTTTGCTCCTTTCTTTCTCCTACAG
Seq C2 exon
TTAAAGAAGTCCTGGCTGTCCCCAACTCCATCCTGGAGCTCCCCTGCCCCCACCTGTCAGCCTTGGCCTCTTATTATTGGAGTCATGGCCCAGCAGCAGTCCCAGAAGCCTCTTCCACTGTCTACAATGGCTCCCTCTTGCTGATAGTGCAGGATGGAGTTGGGGGTCTCTACCAGTGCTGGGCAACTGAGAATGGCTTTTCATACCCTGTGATCTCCTACTGGGTGGACAGCCAGGACCAGACCCTGGCCCTGGATCCTGAACTGGCAGGCATCCCCCGGGAGCATGTGAAGGTCCCGTTGACCAGGGTCAGTGGTGGGGCCGCCCTGGCTGCCCAGCAGTCCTACTGGCCCCACTTTGTCACTGTCACTGTCCTCTTTGCCTTAGTGCTTTCAGGAGCCCTCATCATCCTCGTGGCCTCCCCATTGAGAGCACTCCGGGCTCGGGGCAAGGTTCAGGGCTGTGAGACCCTGCGCCCTGGGGAGAAGGCCCCGTTAAGCAGAGAGCAACACCTCCAGTCTCCCAAGGAATGCAGGACCTCTGCCAGTGATGTGGACGCTGACAACAACTGCCTAGGCACTGAGGTAGCTTAAACTCTAGGCACAGGCCGGGGCTGCGGTGCAGGCACCTGGCCATGCTGGCTGGGCGGCCCAAGCACAGCCCTGACTAGGATGACAGCAGCACAAAAGACCACCTTTCTCCCCTGAGAGGAGCTTCTGCTACTCTGCATCACTGATGACACTCAGCAGGGTGATGCACAGCAGTCTGCCTCCCCTATGGGACTCCCTTCTACCAAGCACATGAGCTCTCTAACAGGGTGGGGGCTACCCCCAGACCTGCTCCTACACTGATATTGAAGAACCTGGAGAGGATCCTTCAGTTCTGGCCATTCCAGGGACCCTCCAGAAACACAGTGTTTCAAGAGACCCTAAAAAACCTGCCTGTCCCAGGACCCTATGGTAATGAACACCAAACATCTAAACAATCATATGCTAACATGCCACTCCTGGAAACTCCACTCTGAAGCTGCCGCTTTGGACACCAACACTCCCTTCTCCCAGGGTCATGCAGGGATCTGCTCCCTCCTGCTTCCCTTACCAGTCGTGCACCGCTGACTCCCAGGAAGTCTTTCCTGAAGTCTGACCACCTTTCTTCTTGCTTCAGTTGGGGCAGACTCTGATCCCTTCTGCCCTGGCAGAATGGCAGGGGTAATCTGAGCCTTCTTCACTCCTTTACCCTAGCTGACCCCTTCACCTCTCCCCCTCCCTTTTCCTTTGTTTTGGGATTCAGAAAACTGCTTGTCAGAGACTGTTTATTTTTTATTAAAAATATAAGGCTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196189:ENST00000368285:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.029 A=NA C2=0.127
Domain overlap (PFAM):
C1:
PF0143720=PSI=PD(33.3=51.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCTGGAAGCAGGACATGGA
R:
GTCTGGTCCTGGCTGTCCA
Band lengths:
342-1090
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