GgaINT0067163 @ galGal4
Intron Retention
Gene
ENSGALG00000010697 | SEMA4D
Description
sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D [Source:HGNC Symbol;Acc:HGNC:10732]
Coordinates
chrZ:43474950-43476342:-
Coord C1 exon
chrZ:43476244-43476342
Coord A exon
chrZ:43475044-43476243
Coord C2 exon
chrZ:43474950-43475043
Length
1200 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
TTCAACTTAATTTTTTGCAGAAT
3' ss Score
8.44
Exon sequences
Seq C1 exon
ACTGAGTGCCGTAATTATGTGCGTGTGCTGCAACAGCTAAATGACACTTTTCTCTACGTGTGTGGTACTAATGCATTTCAGCCAACTTGTGATTACCTG
Seq A exon
GTAAGATTATGTAGATTTTGTGACCCAGTAAAAACTTCAACAAAAAAACAGCTCATCTAAACAATGAGTTAATCTTTTTTTCCCAAATAGCATTGCAATTTCAGTGCTTGTCATAGCTTCTGAAATATTCATGATACTCTCTCACAGTGATGATTAGAGTACAGAAATAAACTGTACTGTTCCCTTTTCAAAACACTGAATTATTGATTCAGCTTGGTTATCAGCAGATTTACTCTTTCGTTGCTTTTTGTAGTTTTCTGTGTATTTTACATTAGCATGAAAATACTGTCTGAAACTGAAATGACATTCTTTGTGACCTCCATCCAGTACTGAATCTCCCTGAAATTTCTAATATTCCTGTCTCTGCTTGTCTTGTCTCTGCTTCTGGCAATGCCATAGCTTCATAATTCTGAGTGCTTCAAAATGAAGTCTTGGCTTAAAATCAAAACTCCCTTTTTTCATTGCTTACTCTTTCTCTTGTTCTCCTCACTGTGTCTCTTAACGATTCTGAAATTCAGAGATGTTGTAATTATGTTCAACTTAGTTCTTTTTTGTTTTCCCTGCCTGTAAGTTTGTCTGCCGTTAACCCTGGAACATTGCCAGAAGTCACTGCCCTTAGCCTCCAGTGTCTTCATTACACAATATAAGTGATTATTTTCCCAGTATTGTTGATTCAGCTCTCAATCATCTTTCTGATCCTTATTCCCTTGATTTTTAAGGGCTATAAAGCTATAAAGTATTAGTCATTCTGTTGTTTTTGAAAAATACAGCTAGATTATACCCCATCTAACAAATTTAAGTCTCAAAAATTGCTAAGTCCACTTCAGAAAGCTTTCTTAGTTTGTAAAACTGACGATTTTTGTGCAAGCTAATTTAATAATTGCAAGTTCTTGCCTTTCATCATCTAATTTCTCTGCCTTTCATATTGTGTGGTTTTTTGGCAGATCTCTTCCCTATCTTTCTCCTTCTATGCCTGGATTTAACTTTTTGTCTATTCTTTATTGCTACTTCCCTCAGTTTCCTCTCTCTGTTATACTTGATCACATTTTCTGAAAGCTTATATGTATTTTATAATCTTTGAAAAACAGTCACTTTGAAAGTTACTGGTCCATTGGTTTTTAGTTACCTTTGCATGATTCAGTTGCTTGAAAGAAAGAGTACAAATGGTTGGCTTGTGGTTTTCAACTTAATTTTTTGCAG
Seq C2 exon
AATTTAATTTCGTTTGAGCTCGAAGGTAAGAATGAAGATGGTAAAGGCAGATGCCCATTTGATCCTGCTCAAAGTTACACATCTGTAATGGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010697:ENSGALT00000037939:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.031
Domain overlap (PFAM):
C1:
PF0086713=XPG_I=PD(23.7=66.7),PF0140314=Sema=FE(19.6=100)
A:
NA
C2:
PF0140314=Sema=FE(19.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGTGCCGTAATTATGTGCGT
R:
ACAGATGTGTAACTTTGAGCAGGA
Band lengths:
183-1383
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]