GgaINT0029089 @ galGal3
Intron Retention
Gene
ENSGALG00000004844 | SEMA6D
Description
NA
Coordinates
chr10:11364877-11367515:+
Coord C1 exon
chr10:11364877-11364988
Coord A exon
chr10:11364989-11367454
Coord C2 exon
chr10:11367455-11367515
Length
2466 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATT
5' ss Score
8.55
3' ss Seq
TTTTTACTGCTTGCAAACAGGGA
3' ss Score
7.66
Exon sequences
Seq C1 exon
ATTCAAGGCAATATCCAGTATTTAGAGGACGCCCTTCAGGCAATGAATCTCAGCACAGACTGGACTTCCAACTGATGCTGAAAATTCGAGACACACTTTATATCGCTGGCAG
Seq A exon
GTAATTTTCCTTCAGTCGGTTCATTAGATTAAAATTCTTTTCTCTTCTGGTTTTGCATTAATGTGTAAAATTCATTTAGAAAAATCTGCAGAATATGATAAAAATTAGAACTGGGGGAGGACTTCCCAGAGAAATACACCGTATCTATGACCAGCGCATGGAAATTGGATTTGAAGGCTGCGGTTACTGTAGTTACGCTAAACCCAGTGATCAAATGCTCTTTTCCCTCTTTTATATTACTGCCCTGATAAAAACCTCTCCTGATTATGTTAAACTTGGACTGACACATCGGGGATGCAGGAAATGAGTATGAAACACTTCAATGTTTAGAGTCTGGATTAGTCTTCAGCATAATGGGAAGGCAGAGTAAGGAAGAGCTGGACAGTGTAAGTGCAATCTAAGGACTACACCAACAAGAGTCACCACCACCCTGTGCTGCCCATGTCCAAACCTCTCCCTTTTGCGTTGCACACAGAAAATCCATAAGCATTTCATAAAAACTTCTTGTCTAACAAAATAGATTTATCAAAACTAAGTCTAACTCATTAATTAATTGACTTGTGTCTTTTTACTGCTTGCAAACAGGGATCAAGTTTACACTGTAAACTTAAATGAAGTTCCAAAATCAGAAGTTACTCCAAGCAGGGTGAGTAGATAAAAGAATGGCAAGGGAGGACTATTTTTTTCTGTTCTCTTTCTCTTTCTTTTCTCTTTCACTTTCTCTTTCTTTCCTCTTTCTCTTTTCCTTTCTTTCCTCTTTCTTCTTTTCTCTTTTAAGGCTTTCTTTGAAAAGAAAATGAAATTTTCTTTCCTGCTTGATTTGAACAGAAATTAACATGGAGGTCAAGGCAGCAAGACAGAGAGAACTGTGCTATGAAAGGAAAACATAAAGTAAGTTTATCTACGCATTGTCATATNNNNNNNNNNCAAGTTCATTATCTTTGCAGTGGTTGTGATCTCATGTTTGTGTCCAACCAGTTAAAAGGTGCATTTAAATGCCTCTTAAAGCGGGTGCCTTTGTGTCTGTGTGTTAGAAATCAGGGTACTGTTCATTTTCTGGTGATATTTTAATAAGCAAAACATTAAGGAATCCTGTGCTGACCTGGCTGGGTATGGGCTGCTGACCCCATCCAGTTCTGAACATAAGTGTTACCACCCCTTCTGTGTTCTCACAGTTCATATCTGGTATATATTCAGAGTTTTCGGGGTTTTTTTCTTGAGGAATCCATAAATGTGGGTTTGTTTCTGTTCCTGATGCAGTCTCTGGGGAAACACATCTTGTGGTTTTACATTTACAAAAGTTTGCCTTGTTTTCTAGGGACTAAAAGTTGGGATTACAGCGTACTGAATAGTGACCCTAACTGAGGGAACGGTCTCGCTCTTGGTGTACCTGGTGTTTTGGTTGTTTCCTTTCTGGTTTTGTGACAGTGGTATTTTTAGGTCATGGCTGTAGTGGCCCATACACAGCAAACTGCCCTTTTGTTCTCAGCCGCATTCTGAGTCCAGAACGCAGTGAGTGCTTTTGTAAAGGAAATTACATGCAAGTTTCAAATTTGTTGCCCCATGGAATTCTTCCTCACTGAGATGCTGGGAGGAAAGAGGAAATAAAGAAACTCTTCCTAACATATGCTCGTAGTAGCAGAAGTTGTACAACTTGCAGGCTGTGTGCATTTTACAGCTGGGATAAGGTCTCTTTGAGTCCACGATGTGTGGCCATGAACCTCCTCATCTTCTACGCTAACTAAAGTTTCAATGACTGGGAGACCATCTTGCTCCGTCCCCGTTTGTATTCATTCACTCTCTAAGGAAGCGAGGCTTCAGGGAGGACTTTTACTCGGCACCGGATAGATGTTCCTGCCCAGCATGTGCCAGTTAGGTGCCTCCATGCCTCTCCTCTGCCTGGGCCAGCAGTGGGGCGGATGTTTGGAGTCTGCTCCAAAAAAGGGACCGTGTAACCATTACTGATTTGTTGTTGTGCCTGGGAGCCGCCGTGCTGCAGGACTTTGCTGAAATGTGCTTTCACAAGAAAGAACTAATTTGACTAACTTTATTAATTCCAGTTTGTTTTAAGTTTGCTCATTAGTAATTTAATGCAAGATGCTTCAGCTGGAGAGGCCATGTCAGGACAAGGAGGAGCAGAGGGAAAGTGCCAGGAATCATTAGTGTTTATTAACCACTGTGCTCATCAATCTTGAGTGAGAGCACAGCCCATCCGTTCTGGACGGGTGGACTGGGATACAGGAATATCATTAACAGGGGGAAATGCTCCTTTTCAGGTCAGTCCGTGATGGCCAGGCGTTCAGACAACACCCACAGCCACACGGCCCTCACCAAACAGCACTTGCACTGCCCGTTGGTCTCCTCGCAGTCTGACCTGGAACTCGGAAGAGCTCGGCANNNNNNNNNNCAAAACTAAGTCTAACTCATTAATTAATTGACTTGTGTCTTTTTACTGCTTGCAAACAG
Seq C2 exon
GGATCAAGTTTACACTGTAAACTTAAATGAAGTTCCAAAATCAGAAGTTACTCCAAGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004844:ENSGALT00000007734:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.053 A=NA C2=0.095
Domain overlap (PFAM):
C1:
PF0140314=Sema=PU(3.7=42.1)
A:
NA
C2:
PF0140314=Sema=FE(4.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
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]