GgaINT0067164 @ 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:43473921-43475043:-
Coord C1 exon
chrZ:43474950-43475043
Coord A exon
chrZ:43474035-43474949
Coord C2 exon
chrZ:43473921-43474034
Length
915 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
TATTTGTTTTTGTTTTAAAGATG
3' ss Score
7.61
Exon sequences
Seq C1 exon
AATTTAATTTCGTTTGAGCTCGAAGGTAAGAATGAAGATGGTAAAGGCAGATGCCCATTTGATCCTGCTCAAAGTTACACATCTGTAATGGTTG
Seq A exon
GTAAGTTCAGTCTTTGCATACCTCGTTGTGATGTATAAGTATTCAGTCTTCTCTACTGTTGCTCTCCAGTCTTTCACTTTTAAGGTGGTTTCTAAATCTTTACTGTGCATGTATGTAGATGTAAAAATACTTAGGAGGTCAACCTTAATGTGTTTCTTAAAAGGAGAACATAGGAAAACTTCAGGTTGTTCTGGAAGCAACTTTTAAAACAACAGCTTTCAAGATAATAATTTTCAAGTGCTTTAGTCCAGGTAGTCTAAATGTACTTTGACTGCCTCTACAGTACCAATTACAGTCATGTACATAACTTTAACACATAGAATTTTTAGTTTTCCTGAAGACAGATGGTGAAACGGAACAGGAAAGTGAAGTATGTATTACAACTATATTACCACATGGTTAGACAACTAAATGTTGATGGATAAAACCAGAGTTGATAGCTGTATCATGGTGTCACAAGATCATAAAAGAGAAGCTTGAAGTAACATGGAACAGGAAATGAAAAAGAGCGCACTCACTATGTTGTTCTTTAAATTCTTAAGTTTAGTTTGAATCATGGTGGCACATAAAGAGAGAAAAACAATTAGTTCCAAAACTTCTCTGGCATTTCTTAGATACATTTTGATACATAAACATAACGTTTATATAGGAAGTGTTAAAGTACCATGAAAACAGTGCTCACTTTTGCCAGGTGCTTGTGTTAGAAAAATAATAAACCAAGTGTAAAAATGTTAGCTCTGACAATGGTCATTAGAAATATAGACATAGAAGACATGTCTGGGGCAACTGAGAGGAAACTCTTGTTTATCTTTTCTTGTGAGAAGTTTAAGCTAACATAGTCTCTTGAAATATTTATGTACGTTTTTTTGTATACAGTGCATAAGAAAGTTTAAAATATTTGTTTTTGTTTTAAAG
Seq C2 exon
ATGAGGAGCTTTATTCTGGGACTTCTTACAATTTCTTGGGAAGTGAACCTATTATTTCACGAAATTCTCATCAGAGTCCTCTGAGAACAGAATATGCAATACCTTGGCTTAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010697:ENSGALT00000037939:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.031 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(19.0=100)
A:
NA
C2:
PF0140314=Sema=FE(23.3=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:
TTTAATTTCGTTTGAGCTCGAAGGT
R:
CATTAAGCCAAGGTATTGCATATTCT
Band lengths:
206-1121
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]