MmuINT0141260 @ mm9
Intron Retention
Gene
ENSMUSG00000001227 | Sema6b
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6B [Source:MGI Symbol;Acc:MGI:1202889]
Coordinates
chr17:56272139-56273275:-
Coord C1 exon
chr17:56273035-56273275
Coord A exon
chr17:56272292-56273034
Coord C2 exon
chr17:56272139-56272291
Length
743 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGG
5' ss Score
6.35
3' ss Seq
ACCGCCCTCCTGGCTTGTAGGTG
3' ss Score
9.3
Exon sequences
Seq C1 exon
GGTCTTCCTGTTTTTTGGCCCTGACCGTTAGAACAGGGGCTGATGTTAGCCTGGGGCTGATATTCCCTCCATCATCCCCACCCACTGTGGCTTCTGATCTCCAAGACACAAGGTCAGGGGTAGGCTGGGAGACATCTCTGCTGCCTGGATGGGGAAACTGAGGCCCAGAGTTTGTTGGAGATTGACGAAGCTTCTGAGAAACCCACGTGGGGTGTCTCGAATTGGACTGTACTCCTTTCTG
Seq A exon
GTAGGGAGACGCTGCCCTGCCCTGGGGCCCCTAGGTTTGGAGGGCTGGGTCCTGCATGTTTTCACACACCTCAGGATTCCTCACTTATGAATGAGAGCAGAAGGAAGTCGTCCAAGGGGACAGGAAGTCAAACCCACCAGCGACACTAAGGCCCCTGCACACTGCGATATTCTACGACTCCCATTGCTAATGATGTGGTGTATAAAATGCCAAGGGCTTTTAATTCTGCTATGTTTTCTTCTGCCTTTGAATTGGAAATACGGTCCCTCTTTGTGTATTGGTTCTAATTTTGTGGCCATTTGGTTTTATCGTGGGGTCTTGCTATGCAGACCAAGCTGTCCTGGAACTAGTGATGCTCCTGCCTCAGCCTCTCCAAGACTGGGATGACAGGCCTATGCCACAACGCCAGGTTCTAAGGCTTTTCGCGTTTTCATTTGAAGGGTTTTTTAAAAAATGCTTTTTGAGATTGGATTTTTAAACGCATGTTTTAAGATAATATCCATTATTGTAATTCTCGTGATTAATTTTTAATTACCTAATGCATTTTCAGTTGCAGCTATTTCCTGAGAATTTTACTCACATGTGGTCTTAAAGTCGCTTGTTAATTAAACAACGTCTGAGAGTAGTTATTATTATCAATGTTATTTTTATTCTGGGAGGGAGGAAGGGAGGGACTCGCGTGCCCCCTACCGGCTTATTATGAAACTGCAGGCCGCTCAACTCACCGCCCTCCTGGCTTGTAG
Seq C2 exon
GTGTCATCTGTGGTCATCCGGTCCTCACCATGTGGACCCCGCGAGTGCCCCCTCCACGCCCGGCCCTGTCGTTTTTCCTGCTGTTGCTCCTGGGGGTCACCTATGGCCTTTTCCCAGAAGAACCACCTCCACTCAGCGTGGCTCCCAGGGACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001227-Sema6b:NM_013662:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.048
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
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:
ACCGTTAGAACAGGGGCTGAT
R:
TGGAGGTGGTTCTTCTGGGAA
Band lengths:
349-1092
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: