GgaINT0061020 @ galGal3
Intron Retention
Gene
ENSGALG00000002294 | SEMA6A
Description
NA
Coordinates
chrZ:70718413-70721275:+
Coord C1 exon
chrZ:70718413-70718512
Coord A exon
chrZ:70718513-70721157
Coord C2 exon
chrZ:70721158-70721275
Length
2645 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
TTCTTTTTCACTTCCCACAGATA
3' ss Score
11.41
Exon sequences
Seq C1 exon
ATGAGGTCAGAAGCCTTGCTGCTATATTTCACACTGCTACACTTTGCTGGGGCTGGTTTCCCAGAAGATTCTGAGCCGATCAGTATTTCGCATGGCAACT
Seq A exon
GTAAGTATAAGAGGCCTTCATCTGCTTTGAAGTAATCATTAGACTTCAAATTGACAGTATTTTGTTATGCTGTGAATAAATAAAGTTGTTTTTCCTCCTCCCTCCCAGATCAACCAATTTACATTCTCAGATAATAAGAACAAGAACTGCTTATCTTGACTTATGACAGCTGGATGGTGGGATGTTTGATTCTCCAAAGCCATAGCCTTTTTCCTCCTCAAATAGATCCTTTGATAGCATAATTAGACCACGTATTTGTTTTATCCAGAAGCAACTAAAGGAAACTTCCCCCCCCCCCTCCTCCATTATCAAGTAATTATTCACCTGACCTGTGAAATTGTAGGTCTGGATAATCAGTGGCTCATCTCAGAGTATCACTATAGCACAGTAAATAACAGCTTTAAAAATATAATTGGTTGAGCTAGTACAAATAACCAATCTTACTTCTTTGAACCCTGCTGGATTGCACTTTAGCATTTGGCCTTTTTGGCTAGAAATGTAGATTCTTTTTTTATTATTTTTTTAATAAGACAAAGAATCTTTTGTAACAGAAATCCTCTTCTTTCTTACCAACACTAGTTGGCAAACTCTGCAAAATCATGGGTAACACAGACAGCTGCAAGTCAGTACTGAGATTTGCTGACAAAACAGGTGGAGAGCTTTCTATGGATTTTACCATGCAAGTCAGACTTAACATGAGTGATTCTTCACATTTACCACAGCTCAATTTCAATTACTCCAGAGAAGAGTATTCTGAAGTCCTGAAGTTTGAGATATTTAGTAGGAAGTACTTAGCATGTGAGTCTGTAAAAGTGTGCTAAGGAACAGCAAGTTAGCAATTATAACTCATATTTAAATCTACTTTGGACCAGGAATTTGATTTTGATGTGAGTCTCCTGAGTGTCCTTGCTCATTATGCTTTGCATTGGCCTTGACGCCCAGAAGCCTGTTTGTCTTGGGGAACACTAAACCGGGAGACAGATCCTGCCAGGCAGTTGATGTGCTCCAACTGCTAGTAGACATCTGTGGTACTGGAACAGGGCAGAATTACGCTATAGAAAACCCTACTGAAACTTATTTAGGGTGGCCATCGGGCTTTCAGCAGCAACATTTTCACCTTCCAAATGGTTATGTTGATTGTTTGCATGAAATGTGGGATAAATTCTCTCTCCAGCATGGTGTGCTGAAATGCATGTGAATGTGCAATCCCCAGCTTCTATTAGATCAGTGACTTCCTACAGAGGAAACAGAACTGAGTAGAGAAGAGCCTGAAAGTTTGAAGTTGGCATTTTGCACATAGGTCTCGGTCAGAAGCTTCAGGCTTCTGAACATAAATCCTGGCTGGACTCTATTAATTTGTTTCCCCAAGAGTTCTCAGCATCTGATTTACAGACTTTCTCACACATGATGTTCTCAAGTGCTTTGCCAAAGCTGTACTGTCAAAGTCAGTGCTTCAACCAAACTTGGCAGAGAGAATACTCTTAGAGGACAGCGGATGAAAACTACAAGTGCAGTAACTGAGTTTCTGAAGAATTAGGCTCCCTCAATTAGCTGCAGTTTTCTGGTAAAACAAATTGCTGGGGATAAGGCTCGTTATGGCTTGATGCTAGTCAGATCTGTGTAATGACTAAGCACTACACAAGCTACCCAGACAGTCTGTGGATTCTCCCTTCTTGCACATGTTCAAAAGCTGCCTGGATGTGGTCCTGGGCGACCAGCTCTGGTGACTGTTTGAGCAGGGAATTAGAAATCAAATGGCCTTCAGAGGTCCATCAGCCAGTCTGTGGTTCTGTGAATATACACAGGCAACACTTCAGTATTATGATGATGTTCATCAGAGGTTTATTCTCCTCTTGTCTTTGCATTTGCCTGTATAGCTCCTTATTTGGTGCACCTAGACATCATGATCATGCATTCATTTTCAGTCTAACAGCAAAGTGGCTCTCGGTCAAAAATATTTACTATTGCTGTAGAGAGGGACTAAATGCTTGTGCTGATTGATAGAGAGGGGGAAGAAGCTGGCTTGATGATAGCATAAGATCAATAGAAGGCTTCCAGTCAGTACTGTTGCTCAGTTTCCAGAAGAACTGCAGTATCAGACTGGTTGCCAAAATAATGTGCAGACACTTTCATTTTAAAAAGTTTGAGTAGTGGTTACCCACAGTTTCTTAGAAATCCCCGCAGCTGCTCTACAATATCAGTCCAATCCTGTAGGAAACCCACTGATCTGACAATTTGAACCACTCAGAGCCAAGTCTTTTGCTTTAACCACTACTAATCCAGTCATTGTGATGATTGATGGGCTACTGTAAAACAGCTTTGTCCTACTCGATACACTTTGGCAGCCAGAAGCCAGCATTTAAAGTCTGCAAGCCGTGAAAGAAAAACTGTGAGAAAGTGCCATGTACCTCTGTGCCAAGAGCTCTAAAGCAGCTTTACATTCTAAAAAATTCACAGTTCTTGTCTGCTAAAAAATTACTTTCTCCTTTGCACCCTTAGCCCTCTGTGCTAGTACCTTCCCGCCCTAGGCCCTGATGCTGGGGGAGAAGAAAAACCACAGATTTCAGCCGTTGCCATGTTTGCATGTGATTCTATTTTGTCTTTTGCTTTTTCTCTGGAACCTTGTTCTTTTTCACTTCCCACAG
Seq C2 exon
ATACAAGACAGTATCCGGTGTTTGTGGGTCACAAGCCGGGACGGAACACCACGCAGAGGCACCGGCTGGACATCCAGCTGGTCACGGTCATGAACAGAACCCTCTACATTGCTGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002294:ENSGALT00000003608:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.025
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0140314=Sema=PU(3.9=42.5)
Main Inclusion Isoform:
NA
Other Inclusion 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]