GgaINT0029104 @ galGal4
Intron Retention
Gene
ENSGALG00000004844 | SEMA6D
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D [Source:HGNC Symbol;Acc:HGNC:16770]
Coordinates
chr10:9413493-9416187:+
Coord C1 exon
chr10:9413493-9413660
Coord A exon
chr10:9413661-9415753
Coord C2 exon
chr10:9415754-9416187
Length
2093 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
ACGCTGCATGTCTTTTGCAGGTG
3' ss Score
10.68
Exon sequences
Seq C1 exon
ACATGAAGTTCTCCTCAGCTTCCATTACCACAATGGCAAGTATCCCAGTTATATCACCTAGAGTGATTGGTTCCTGGAAACCTAAAGTGACTGGCTCTCGGAAATTTGTAGTTCAAGATGACCCAAACACTTCTGATTATTCTGATCCATTATCAGGTGTCCCAAAGG
Seq A exon
GTAAGGCCTTACCAGGGAATACATTGCAGCTGAATGGAAACCTGATAGTCTCAGCATTTTCTAAGGTTTAAATGTAACAGCCGTGATTGTTGGGCTATACTTCATACCCATTTCCTGTGAATATGCAGACAGTGCAATCATGATTCTCATACCTATTTATCCAGCGTACAAAGTGCTGCTTAGAGCTTATAATGGGGAGATGCAGATAATAAGCTCAGCATCTCAGTGTTGGGGTGCTTCAAAACTCCCATTAAAATCAGTGGATGCACTCATTTTCAAATGAGTCTAGTTTGGAAAAGACTGTTAGTCCTTGTGAGTGGTTGCTTACAAGAGCTCGATTTTCTTGTTTTGCTTTTTGGGTTTTTTTGGGGGGGGCGGGGAGGAGGTGGGAGAATTGAGGCAAAACTCAGCTCCATGACAGGTCCATGTTTTAAAGGGGGCACATCCCAACCTCCTTCTGCCTGCAGCACTTTTGTGAGAATGTGGTCAGATCTGAGTAAAGATGTACTGAATTTCCATTCTCTGGCTATGAGGATCCAATTACAAATGATCTCCTCAGTACATGGAGGTACAGACACAGTTTTTAATCTGAACACAGAAAGAAACATGTACTGCATGTAATTCATCTTTCTGTAGCTGTTCTTTCAGCTAAGTGAAGCTTTGATTAGGCTCTTACAGCAACAAAGATTTCAATTCAGCAGGACTATTGCAGTCAATCAAAGACTCAAGAAGCTTCCGACCCCATAAAGAAAACTTAAAAGAAGTCTTCATCAGAGCACAGAATAGCAGGGTGACAGGCATGTTTGCACAATTCTGTATTCTGAAAAATCTCTCTAGCCAAAAAACATTTCTATTTTTATTACCATTCACCAAAACATATCAGGTTTCCTATCAGCCATTACAGCAGTGCATTTGTCATTTTAATTTGTTGCAGTTATTTTCCATTTTGCTTTAAGTTTTTTTGTTATCATTTGCTCTTGGTTCTGAATCACATTCTGTGTCATAGCTATTAGTGAACTTTACTCATGTTCTTTCTTCTTCTGCACAGTACCATTAAAACCTATAGCCCTGAAAGTTAACAATGTTCAAAAGGCCTTGCCTCTAACAAAAATGAATCTGTAGCTTCAGTCTTGCTCTTTGTTTGAATGTCCTTTGGGATAGTTAACAGAATTACTTCCATTAAGAACTAACATTATCTTAGCTGCAAGATGTCTGTGGTTGCTTTAAAAAATCTCAAGAAACAAAGGGAGCTGGTTAATATGTGAATCACAAACTAATCCAATATTCAACTTTGTCTAAACAAAAAGTTTTCTAAATTTTAACACTGTATGGTAACTTAACCTTGCAAGGTGTGTTTTTTTTTTCTATATTATGCAAGTATTTGTGTTTGTTATTGACTACAAGTAGAAAGGAAAACTTGTGCTTTAATAGAATGCTGTAATCTTTAACTTAAAAATTGTATGCTTACCTGATCAAACTGTGCCATTCCAAGGCTAGAGAGCTGCAGATGGATTAGTTTACAAGTTTTGCACCATATATTGATGTGGTTTAACAATGCAGTACGTAAGTTATACAGTTCTACGTAACATTTGCATAATCCCGTCTCTCTTTTGATACTGATTTACGAGTTGGGCAGAAAATTGAGAGAGAAATCCATCTATGAGTTATTAATTGCTGTCTGGCCCAGTAGCACCTTCTAACCTCAATTTTCCAGCAGAAATCAATTAACGTTAATAGCATTCAGGCCCCCTGTTTGTAAGCCTTAAAGGAAAACTGGGGACAGGCTAAACAGATAGCATACAGCGTACAACCGAACGTAGTATGAGGAGTGAAGCTCTGACAAGCATCTGGGCTTGTCCAAAGAAAGTAGACAGTCTAAATAGAGCTGCTCAATGCTAATTCGGTCCTTTTTATTTATAAAATTATTAGCACGCAACAGTGCTGTGGACTGCAGAGATACCGTAACAGTGGGCACAGAGCACTTAAAAACTTAAGGACGCTGCTGTCCTTCTCCAAGGCAGGCTAACTGCTTCTGAAATATAGATCAGTTTTAAGTATGTGTAAATTTATGATACGCTGCATGTCTTTTGCAG
Seq C2 exon
GTGTAAGGTGGGAAGTGCAATCAGGAGAGTCCAACCAAATGGTACACATGAATGTCCTAATCACTTGTGTCTTTGCTGCTTTTGTCCTGGGAGCCTTTATTGCGGGAGTGGCTGTGTACTGTTATCGAGATGTGTTTGTACGGAAATCCAGGAAAATACACAAGGATGCAGAATCTGCTCAGTCCTGTACAGACTCCAGTGGGAGCTTTGCTAAACTGAATGGGCTTTTTGATAGTCCCGTCAAGGAATATCAACAAAACATCGATTCGCCCAAACTCTACACCAACCTGTTGACTAGCAGAAAGGAACTGCCACCAAATGGCGATATGAAGTCCATGATGATGGACCACAGAGGCCAGCCTCCGGAATTAGCTGCACTTCCGACTCCTGAATCCACACCGGTTCTTCAGCAAAAGACTCTGCAAGCCATGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004844:ENSGALT00000007734:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.105 A=NA C2=0.400
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
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]